https://www.bioontology.org//mediawiki/api.php?action=feedcontributions&feedformat=atom&user=Sima 2026-06-05T11:12:17Z User contributions MediaWiki 1.35.9 https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3733 2006-07-26T19:51:42Z

<p>Sima: /* Past meetings */</p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Melissa Haendel, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, David Sutherland, Monte Westerfield <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Workshop on Ontology of Diseases'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-7, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Werner Ceusters, Christopher Chute, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, Monte Westerfield<br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Workshop on Clinical Trial Ontology'''<br /> **May 16-17 2007, venue TBD<br /> **[[Workshop on Clinical Trial Ontology | information about Clinical Trial Ontology workshop]]<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall 2007?<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. 2007?, Buffalo?<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **2007?, Bethesda?<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **2007? with Andreas Califano, Columbia, NY?<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **2007?<br /> <br /> == Past meetings ==<br /> <br /> *'''Functional Genomics investigation Ontology (FuGO) 2nd Workshop'''<br /> **July 24-28, 2006, Hinxton, UK<br /> **http://fugo.sourceforge.net/news/index.php<br /> **Attending: Barry Smith<br /> <br /> *'''9th International Protege Conference'''<br /> **July 23-26, 2006, Stanford, CA<br /> **[http://protege.stanford.edu/conference/2006/ http://protege.stanford.edu/conference/2006/]<br /> ** Attending: Chris Callendar, Christopher Chute, Tricia d'Entremont, Chris Mungall, Mark Musen, Natasha Noy, Daniel Rubin, Nigam Shah, Kaustubh Supekar<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, NIH, Bethesda, MD<br /> **Attending: Michael Ashburner, James Buntrock, Chris Callendar, Simona Carini, Louis Goldberg, Deborah McGuinness, Chris Mungall,Mark Musen, Fabian Neuhaus, Daniel Rubin, Nigam Shah, Barry Smith, Nicole Washington, Monte Westerfield <br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> **[http://www.bisti.nih.gov/ahm2006/ncbo_dissemination.htm Ontology: A Vision for the Future and Its Realization] Dissemination Event<br /> ***Organizers: Mark Musen, Barry Smith<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley, CA<br /> ** Attending: Julie Moseley, Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Christopher Chute, Harold Solbrig (Mayo); Margaret-Anne Storey (UVic); Sherri De Coronado (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley, CA<br /> ** Attending: Dilvan Moreira, Lynn Murphy, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Harold Solbrig (Mayo by phone); Chris Callendar (UVic by phone)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Attending: Werner Ceusters, Mark Musen, Barry Smith<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis, MO<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Michael Ashburner, Mark Gibson, George Gkoutos, Suzanna Lewis, Gillian Millburn, Chris Mungall, Fabian Neuhaus, Erik Segerdell, Nigam Shah, Monte Westerfield<br /> **[[Agenda PaTO | PATO meeting agenda]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Mark Gibson,Paula Mabee, Chris Mungall, Monte Westerfield<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Michael Ashburner, Suzanna Lewis, Chris Mungall, Barry Smith<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Workshop on Ontology of Images'''<br /> **March 24-25, 2006, Stanford, CA<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> **[Workshop on Ontology of Images | info on Ontology of Images workshop]<br /> ** Attending: Suzanna Lewis, Chris Mungall, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith, Kaushtubh Supekar<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Suzanna Lewis (speaker), Mark Musen (Session chair), Barry Smith<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, CA<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Deborah McGuinness (Keynote, tutorial), Mark Musen (speaker), Daniel Rubin, Kaustubh Superkar (speaker) <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte Westerfield<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford, CA<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford, CA<br /> ** Attending: Christopher Chute, Suzanna Lewis, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: James Buntrock, Christopher Chute, Tom Johnson, Chris Mungall, Deepak Sharma, Harold Solbrig<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, Washington, DC<br /> **Attending: Mark Musen<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, Berkeley, CA<br /> ** Attending: Melissa Haendel, Sierra Taylor (ZFIN); John Day-Richter, Mark Gibson, Suzanna Lewis, Chris Mungall, ShengQiang Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton, UK<br /> **Attending: Michael Ashburner (speaker)<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, Berkeley, CA<br /> ** Attending: Ben Olasov, Ida Sim (UCSF); Mark Gibson, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); Daniel Rubin (Stanford by phone)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry Smith<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry Smith<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzanna Lewis, Barry Smith<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford, CA<br /> ** Attending: Daniel Rubin (Stanford); Suzanna Lewis, Sima Misra (Berkeley); Russ Altman, Tina Boussard, Teri Klein, Mark Woon (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **January 2-6, 2006, Maui, HI<br /> **Michael Ashburner (Keynote)<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH, Bethesda, MD<br /> **Attending: Mark Musen, Suzanna Lewis, Monte Westerfield<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending: Melissa Haendel, Paula Mabee, Erik Segerdell, Monte Westerfield (ZFIN); Gillian Millburn (FlyBase); Mark Gibson, Suzanna Lewis, Chris Mungall (Berkeley); Chris Callendar, Sean Falconer, Margaret-Anne Storey (UVic)<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **December 8-11, 2005, Asilomar, CA<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Sima Misra (organizer), Chris Mungall (speaker), Monte Westerfield (speaker)<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town, SA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, Cold Spring Harbor, NY<br /> ** Attending: Michael Ashburner, John Day-Richter, George Gkoutos, Suzanna Lewis, Chris Mungall, Mark Musen, Erik Segerdell, Nigam Shah, Monte Westerfield <br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford, CA; Nov. 22, 10am-3pm, Berkeley, CA<br /> ** Attending: Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam, (Stanford); Nomi Harris, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); James Buntrock, Deepak Sharma, Harold Solbrig (Mayo by phone)<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT, Cambridge, MA<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, 2005, Cold Spring Harbor, NY<br /> **Suzanna Lewis (organizer, speaker)<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzanna Lewis, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session: making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology'''<br /> **October, 2005, Caxambu, Brazil<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Applied Biosystems Inc., Science Meeting'''<br /> **September, 2005, Asilomar, CA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner (Keynote)</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=BioPortal_FAQ&diff=3731 2006-07-26T19:28:29Z

<p>Sima: /* Where is the OBO Foundry? */</p> <hr /> <div>Frequently Asked Questions within cBio<br /> <br /> This FAQ is currently in alpha - please be patient...<br /> <br /> =General=<br /> <br /> ==NCBO==<br /> <br /> ===What is NCBO?===<br /> <br /> National Center for Biomedical Ontology<br /> <br /> ==OBO==<br /> <br /> ===What is OBO?===<br /> <br /> Open Biomedical Ontologies<br /> <br /> ===Where are the ontologies?===<br /> <br /> Currently on http://obo.sourceforge.net<br /> <br /> Soon to be moving to the NCBO site<br /> <br /> ===How do I submit an ontology?===<br /> <br /> The current protocol is:<br /> <br /> Send an email to the obo-discuss mailing list, even if the ontology is in planning stages<br /> <br /> If the ontology satisfies basic criteria, we will add it to the OBO metadata and it will appear on the OBO site<br /> <br /> Soon we will have an ontology submission service on the NCBO website<br /> <br /> =Ontology Content=<br /> <br /> ==Building Ontologies==<br /> <br /> ===How do I go about building an ontology?===<br /> <br /> ===What is the OBO Foundry?===<br /> <br /> A collaborative experiment, involving a group of ontology developers who have agreed in advance to the adoption of a growing set of principles specifying best practices in ontology development. These principles are designed to foster interoperability of ontologies within the broader OBO framework, and also to ensure a gradual improvement of quality and formal rigor in ontologies, in ways designed to meet the increasing needs of data and information integration in the biomedical domain.<br /> <br /> ===Where is the OBO Foundry?===<br /> <br /> See http://obofoundry.org/<br /> <br /> ==Current Ontologies==<br /> <br /> ===incomplete is-a paths===<br /> <br /> Many OBO ontologies are currently incomplete with respect to all classes/terms having an is-a parent. Many tools (including OBO-Edit and AmiGO) deliberately allow the conflation of relations when presenting the ontology as a DAG or a tree to the user. However, other tools (including Protege and SWOOP) do not. This means that some OBO ontologies can look unusual when viewed with these other tools (lots of classes appear at the root level).<br /> <br /> This is currently being addressed by the maintainers of OBO ontologies. An effort is underway to complete the is-a parentage in the GO cellular component ontology (biological process will be more difficult). The Plant Ontology Consortium are completing the is-a parentage in the plant anatomical structure ontology.<br /> <br /> Until this work is complete, some OBO ontologies may look unusual when viewed in conventional ontology browsing and editing tools. With some of these tools, there may be some configurations which allow other relations to be conflated with the is-a relation when presenting the ontology as a DAG or tree view.<br /> <br /> One option is to automatically create an is-a parent to the ontology root for every non-root class/term which lacks any is-a parents. Note that this may create inconsistencies in the ontology if the genuine is-a parent is somewhere deeper in the ontology hierarchy; nevertheless this step may be necessary before presenting some OBO ontologies to tools such as reasoners.<br /> <br /> =Technical=<br /> <br /> Questions for cores 1 and 2<br /> <br /> ==OBO Format==<br /> <br /> Questions about the OBO text and xml formats<br /> <br /> ===What is OBO Format?===<br /> <br /> ===Is OBO Format different from the old GO format?===<br /> <br /> Yes. The old dag-edit format (i.e. the one in which indentation was used to denote the GO hierarchy) is STRONGLY deprecated.<br /> <br /> ===Where can I find the spec?===<br /> <br /> You can find details on the 1.0 spec on the GO home page<br /> http://www.geneontology.org/GO.format.shtml#oboflat<br /> <br /> This spec is somewhat underspecified<br /> <br /> The 1.2 spec is in preparation, and will be released to coincide with the first production OBO-Edit release sometime early in 2006<br /> <br /> You can find a preliminary version of the spec here:<br /> HTML -- http://www.godatabase.org/dev/doc/obo_format_spec.html<br /> PDF -- http://www.godatabase.org/dev/doc/obo_format_spec.pdf<br /> Ascii text -- http://www.godatabase.org/dev/doc/obo_format_spec.txt<br /> <br /> ===Why not use XML?===<br /> <br /> There is also an obo-xml format. See<br /> <br /> http://www.godatabase.org/dev/xml<br /> <br /> Currently only available as DTD. Relax-NG and XSD coming soon.<br /> <br /> ===Is there a UML model?===<br /> <br /> Yes, there is a UML translation of the obo format in progress, produced by Harold Solbrig of Mayo clinic; see:<br /> <br /> http://informatics.mayo.edu/schema/OBO/UMLModel/HTML/<br /> <br /> ===What tools support Obo-Format?===<br /> <br /> The following are *ontology* tools that support the OBO format. There are many other tools for the analysis of gene ontology data which also happen to read the OBO format - see http://www.geneontology.org/GO.tools.shtml for a list<br /> <br /> ; OBO-Edit<br /> : (naturally!). You should use this rather than DAG-Edit (DAG-Edit still supports obo-1.0 format), as DAG-Edit is deprecated as of 2006.<br /> <br /> ; COBRA<br /> : developed by Stuart Aitken as part of http://www.xspan.org. COBRA is a java ontology editor/viewer for aligning ontologies<br /> <br /> ; go-perl<br /> : http://search.cpan.org/~cmungall/go-perl<br /> <br /> ==Using Protege with OBO ontologies==<br /> <br /> You have two options here - use the Protege OBO plugin, or convert to a format which Protege understands.<br /> <br /> The OBO plugin was developed at the University of Washington, and is no longer supported.<br /> <br /> You can convert any obo-format file to OWL and use Protege-OWL (but not Protege-classic); see the next entry.<br /> <br /> Note that when you look at many of the OBO ontologies in Protege (classic or Protege-OWL) you will see that there are large amounts of classes apparently at the root level. This is because OBO ontologies have historically not been complete with respect to all classes having a superclass (is-a parent). This is currently being addressed. See the FAQ entry on this subject.<br /> <br /> ===Can I convert Obo-format to OWL?===<br /> <br /> Yes. At this present time, the best way of foing this is to use the xslts included in go-perl.<br /> Download and install:<br /> http://search.cpan.org/~cmungall/go-perl/<br /> Then run the script<br /> <br /> go2owl myontology.obo<br /> <br /> This functionality will soon be available from oboedit<br /> <br /> For more details on the mapping, see:<br /> <br /> http://www.fruitfly.org/~cjm/obol/doc/mapping-obo-to-owl.html<br /> <br /> ===OK, but can I just download OBO ontologies as OWL without doing the conversion myself?===<br /> <br /> You can, at least for some OBO ontologies. This is an experimental service, and will eventually be subsumed into the services provided by cBio:<br /> <br /> http://www.fruitfly.org/~cjm/obo-download<br /> <br /> ===Can I convert Obo-format files to Protege-classic?===<br /> <br /> Not yet. In theory it should not be hard to provide an XSL for this. The reverse transformation may be more difficult.<br /> <br /> ==Ontology Metadata==<br /> <br /> ==OBD==<br /> <br /> ===What is OBD?===<br /> <br /> OBD is a database for storing data typed using OBO ontologies<br /> <br /> ===Where is it?===<br /> <br /> In development!<br /> <br /> ===Is there a demo?===<br /> <br /> See http://www.fruitfly.org/~cjm/obd<br /> <br /> ===Datasets===<br /> <br /> See the above URL for now</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=BioPortal_FAQ&diff=3730 2006-07-26T19:28:13Z

<p>Sima: </p> <hr /> <div>Frequently Asked Questions within cBio<br /> <br /> This FAQ is currently in alpha - please be patient...<br /> <br /> =General=<br /> <br /> ==NCBO==<br /> <br /> ===What is NCBO?===<br /> <br /> National Center for Biomedical Ontology<br /> <br /> ==OBO==<br /> <br /> ===What is OBO?===<br /> <br /> Open Biomedical Ontologies<br /> <br /> ===Where are the ontologies?===<br /> <br /> Currently on http://obo.sourceforge.net<br /> <br /> Soon to be moving to the NCBO site<br /> <br /> ===How do I submit an ontology?===<br /> <br /> The current protocol is:<br /> <br /> Send an email to the obo-discuss mailing list, even if the ontology is in planning stages<br /> <br /> If the ontology satisfies basic criteria, we will add it to the OBO metadata and it will appear on the OBO site<br /> <br /> Soon we will have an ontology submission service on the NCBO website<br /> <br /> =Ontology Content=<br /> <br /> ==Building Ontologies==<br /> <br /> ===How do I go about building an ontology?===<br /> <br /> ===What is the OBO Foundry?===<br /> <br /> A collaborative experiment, involving a group of ontology developers who have agreed in advance to the adoption of a growing set of principles specifying best practices in ontology development. These principles are designed to foster interoperability of ontologies within the broader OBO framework, and also to ensure a gradual improvement of quality and formal rigor in ontologies, in ways designed to meet the increasing needs of data and information integration in the biomedical domain.<br /> <br /> ===Where is the OBO Foundry?===<br /> <br /> See http://obofoundry.org/<br /> <br /> ==Current Ontologies<br /> <br /> ===incomplete is-a paths===<br /> <br /> Many OBO ontologies are currently incomplete with respect to all classes/terms having an is-a parent. Many tools (including OBO-Edit and AmiGO) deliberately allow the conflation of relations when presenting the ontology as a DAG or a tree to the user. However, other tools (including Protege and SWOOP) do not. This means that some OBO ontologies can look unusual when viewed with these other tools (lots of classes appear at the root level).<br /> <br /> This is currently being addressed by the maintainers of OBO ontologies. An effort is underway to complete the is-a parentage in the GO cellular component ontology (biological process will be more difficult). The Plant Ontology Consortium are completing the is-a parentage in the plant anatomical structure ontology.<br /> <br /> Until this work is complete, some OBO ontologies may look unusual when viewed in conventional ontology browsing and editing tools. With some of these tools, there may be some configurations which allow other relations to be conflated with the is-a relation when presenting the ontology as a DAG or tree view.<br /> <br /> One option is to automatically create an is-a parent to the ontology root for every non-root class/term which lacks any is-a parents. Note that this may create inconsistencies in the ontology if the genuine is-a parent is somewhere deeper in the ontology hierarchy; nevertheless this step may be necessary before presenting some OBO ontologies to tools such as reasoners.<br /> <br /> =Technical=<br /> <br /> Questions for cores 1 and 2<br /> <br /> ==OBO Format==<br /> <br /> Questions about the OBO text and xml formats<br /> <br /> ===What is OBO Format?===<br /> <br /> ===Is OBO Format different from the old GO format?===<br /> <br /> Yes. The old dag-edit format (i.e. the one in which indentation was used to denote the GO hierarchy) is STRONGLY deprecated.<br /> <br /> ===Where can I find the spec?===<br /> <br /> You can find details on the 1.0 spec on the GO home page<br /> http://www.geneontology.org/GO.format.shtml#oboflat<br /> <br /> This spec is somewhat underspecified<br /> <br /> The 1.2 spec is in preparation, and will be released to coincide with the first production OBO-Edit release sometime early in 2006<br /> <br /> You can find a preliminary version of the spec here:<br /> HTML -- http://www.godatabase.org/dev/doc/obo_format_spec.html<br /> PDF -- http://www.godatabase.org/dev/doc/obo_format_spec.pdf<br /> Ascii text -- http://www.godatabase.org/dev/doc/obo_format_spec.txt<br /> <br /> ===Why not use XML?===<br /> <br /> There is also an obo-xml format. See<br /> <br /> http://www.godatabase.org/dev/xml<br /> <br /> Currently only available as DTD. Relax-NG and XSD coming soon.<br /> <br /> ===Is there a UML model?===<br /> <br /> Yes, there is a UML translation of the obo format in progress, produced by Harold Solbrig of Mayo clinic; see:<br /> <br /> http://informatics.mayo.edu/schema/OBO/UMLModel/HTML/<br /> <br /> ===What tools support Obo-Format?===<br /> <br /> The following are *ontology* tools that support the OBO format. There are many other tools for the analysis of gene ontology data which also happen to read the OBO format - see http://www.geneontology.org/GO.tools.shtml for a list<br /> <br /> ; OBO-Edit<br /> : (naturally!). You should use this rather than DAG-Edit (DAG-Edit still supports obo-1.0 format), as DAG-Edit is deprecated as of 2006.<br /> <br /> ; COBRA<br /> : developed by Stuart Aitken as part of http://www.xspan.org. COBRA is a java ontology editor/viewer for aligning ontologies<br /> <br /> ; go-perl<br /> : http://search.cpan.org/~cmungall/go-perl<br /> <br /> ==Using Protege with OBO ontologies==<br /> <br /> You have two options here - use the Protege OBO plugin, or convert to a format which Protege understands.<br /> <br /> The OBO plugin was developed at the University of Washington, and is no longer supported.<br /> <br /> You can convert any obo-format file to OWL and use Protege-OWL (but not Protege-classic); see the next entry.<br /> <br /> Note that when you look at many of the OBO ontologies in Protege (classic or Protege-OWL) you will see that there are large amounts of classes apparently at the root level. This is because OBO ontologies have historically not been complete with respect to all classes having a superclass (is-a parent). This is currently being addressed. See the FAQ entry on this subject.<br /> <br /> ===Can I convert Obo-format to OWL?===<br /> <br /> Yes. At this present time, the best way of foing this is to use the xslts included in go-perl.<br /> Download and install:<br /> http://search.cpan.org/~cmungall/go-perl/<br /> Then run the script<br /> <br /> go2owl myontology.obo<br /> <br /> This functionality will soon be available from oboedit<br /> <br /> For more details on the mapping, see:<br /> <br /> http://www.fruitfly.org/~cjm/obol/doc/mapping-obo-to-owl.html<br /> <br /> ===OK, but can I just download OBO ontologies as OWL without doing the conversion myself?===<br /> <br /> You can, at least for some OBO ontologies. This is an experimental service, and will eventually be subsumed into the services provided by cBio:<br /> <br /> http://www.fruitfly.org/~cjm/obo-download<br /> <br /> ===Can I convert Obo-format files to Protege-classic?===<br /> <br /> Not yet. In theory it should not be hard to provide an XSL for this. The reverse transformation may be more difficult.<br /> <br /> ==Ontology Metadata==<br /> <br /> ==OBD==<br /> <br /> ===What is OBD?===<br /> <br /> OBD is a database for storing data typed using OBO ontologies<br /> <br /> ===Where is it?===<br /> <br /> In development!<br /> <br /> ===Is there a demo?===<br /> <br /> See http://www.fruitfly.org/~cjm/obd<br /> <br /> ===Datasets===<br /> <br /> See the above URL for now</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=BioPortal_FAQ&diff=3729 2006-07-26T19:26:32Z

<p>Sima: </p> <hr /> <div>Frequently Asked Questions within cBio<br /> <br /> This FAQ is currently in alpha - please be patient...<br /> <br /> =General=<br /> <br /> ==NCBO==<br /> <br /> ===What is NCBO?===<br /> <br /> National Center for Biomedical Ontology<br /> <br /> ==OBO==<br /> <br /> ===What is OBO?===<br /> <br /> Open Biomedical Ontologies<br /> <br /> ===Where are the ontologies?===<br /> <br /> Currently on http://obo.sourceforge.net<br /> <br /> Soon to be moving to the NCBO site<br /> <br /> ===How do I submit an ontology?===<br /> <br /> The current protocol is:<br /> <br /> Send an email to the obo-discuss mailing list, even if the ontology is in planning stages<br /> <br /> If the ontology satisfies basic criteria, we will add it to the OBO metadata and it will appear on the OBO site<br /> <br /> Soon we will have an ontology submission service on the NCBO website<br /> <br /> =Ontology Content=<br /> <br /> ==Building Ontologies==<br /> <br /> ===How do I go about building an ontology?===<br /> <br /> ===What is the OBO Gold standard?===<br /> <br /> ==Current Ontologies<br /> <br /> ===incomplete is-a paths===<br /> <br /> Many OBO ontologies are currently incomplete with respect to all classes/terms having an is-a parent. Many tools (including OBO-Edit and AmiGO) deliberately allow the conflation of relations when presenting the ontology as a DAG or a tree to the user. However, other tools (including Protege and SWOOP) do not. This means that some OBO ontologies can look unusual when viewed with these other tools (lots of classes appear at the root level).<br /> <br /> This is currently being addressed by the maintainers of OBO ontologies. An effort is underway to complete the is-a parentage in the GO cellular component ontology (biological process will be more difficult). The Plant Ontology Consortium are completing the is-a parentage in the plant anatomical structure ontology.<br /> <br /> Until this work is complete, some OBO ontologies may look unusual when viewed in conventional ontology browsing and editing tools. With some of these tools, there may be some configurations which allow other relations to be conflated with the is-a relation when presenting the ontology as a DAG or tree view.<br /> <br /> One option is to automatically create an is-a parent to the ontology root for every non-root class/term which lacks any is-a parents. Note that this may create inconsistencies in the ontology if the genuine is-a parent is somewhere deeper in the ontology hierarchy; nevertheless this step may be necessary before presenting some OBO ontologies to tools such as reasoners.<br /> <br /> =Technical=<br /> <br /> Questions for cores 1 and 2<br /> <br /> ==OBO Format==<br /> <br /> Questions about the OBO text and xml formats<br /> <br /> ===What is OBO Format?===<br /> <br /> ===Is OBO Format different from the old GO format?===<br /> <br /> Yes. The old dag-edit format (i.e. the one in which indentation was used to denote the GO hierarchy) is STRONGLY deprecated.<br /> <br /> ===Where can I find the spec?===<br /> <br /> You can find details on the 1.0 spec on the GO home page<br /> http://www.geneontology.org/GO.format.shtml#oboflat<br /> <br /> This spec is somewhat underspecified<br /> <br /> The 1.2 spec is in preparation, and will be released to coincide with the first production OBO-Edit release sometime early in 2006<br /> <br /> You can find a preliminary version of the spec here:<br /> HTML -- http://www.godatabase.org/dev/doc/obo_format_spec.html<br /> PDF -- http://www.godatabase.org/dev/doc/obo_format_spec.pdf<br /> Ascii text -- http://www.godatabase.org/dev/doc/obo_format_spec.txt<br /> <br /> ===Why not use XML?===<br /> <br /> There is also an obo-xml format. See<br /> <br /> http://www.godatabase.org/dev/xml<br /> <br /> Currently only available as DTD. Relax-NG and XSD coming soon.<br /> <br /> ===Is there a UML model?===<br /> <br /> Yes, there is a UML translation of the obo format in progress, produced by Harold Solbrig of Mayo clinic; see:<br /> <br /> http://informatics.mayo.edu/schema/OBO/UMLModel/HTML/<br /> <br /> ===What tools support Obo-Format?===<br /> <br /> The following are *ontology* tools that support the OBO format. There are many other tools for the analysis of gene ontology data which also happen to read the OBO format - see http://www.geneontology.org/GO.tools.shtml for a list<br /> <br /> ; OBO-Edit<br /> : (naturally!). You should use this rather than DAG-Edit (DAG-Edit still supports obo-1.0 format), as DAG-Edit is deprecated as of 2006.<br /> <br /> ; COBRA<br /> : developed by Stuart Aitken as part of http://www.xspan.org. COBRA is a java ontology editor/viewer for aligning ontologies<br /> <br /> ; go-perl<br /> : http://search.cpan.org/~cmungall/go-perl<br /> <br /> ==Using Protege with OBO ontologies==<br /> <br /> You have two options here - use the Protege OBO plugin, or convert to a format which Protege understands.<br /> <br /> The OBO plugin was developed at the University of Washington, and is no longer supported.<br /> <br /> You can convert any obo-format file to OWL and use Protege-OWL (but not Protege-classic); see the next entry.<br /> <br /> Note that when you look at many of the OBO ontologies in Protege (classic or Protege-OWL) you will see that there are large amounts of classes apparently at the root level. This is because OBO ontologies have historically not been complete with respect to all classes having a superclass (is-a parent). This is currently being addressed. See the FAQ entry on this subject.<br /> <br /> ===Can I convert Obo-format to OWL?===<br /> <br /> Yes. At this present time, the best way of foing this is to use the xslts included in go-perl.<br /> Download and install:<br /> http://search.cpan.org/~cmungall/go-perl/<br /> Then run the script<br /> <br /> go2owl myontology.obo<br /> <br /> This functionality will soon be available from oboedit<br /> <br /> For more details on the mapping, see:<br /> <br /> http://www.fruitfly.org/~cjm/obol/doc/mapping-obo-to-owl.html<br /> <br /> ===OK, but can I just download OBO ontologies as OWL without doing the conversion myself?===<br /> <br /> You can, at least for some OBO ontologies. This is an experimental service, and will eventually be subsumed into the services provided by cBio:<br /> <br /> http://www.fruitfly.org/~cjm/obo-download<br /> <br /> ===Can I convert Obo-format files to Protege-classic?===<br /> <br /> Not yet. In theory it should not be hard to provide an XSL for this. The reverse transformation may be more difficult.<br /> <br /> ==Ontology Metadata==<br /> <br /> ==OBD==<br /> <br /> ===What is OBD?===<br /> <br /> OBD is a database for storing data typed using OBO ontologies<br /> <br /> ===Where is it?===<br /> <br /> In development!<br /> <br /> ===Is there a demo?===<br /> <br /> See http://www.fruitfly.org/~cjm/obd<br /> <br /> ===Datasets===<br /> <br /> See the above URL for now</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Shared_Materials&diff=3728 2006-07-26T19:23:26Z

<p>Sima: </p> <hr /> <div>This page lists materials shared among members of cBiO<br /> <br /> ==cBiO Documents==<br /> [[Media:cbio-r01-plan.v11.doc|Collaboration Plan]]<br /> <br /> [[Media:cBiO-5-pg Center Overview.v3.doc|Center Overview 5-page document]]<br /> <br /> [[Media:cbio_flyer_v3.pdf|cBiO Brochure]]<br /> <br /> [[Media:OBO-Foundry.doc|OBO Foundry]]<br /> <br /> ==cBiO Policies and Guidelines==<br /> [[Citing the Center]]<br /> <br /> [[Acknowledgements in cBiO Papers]]<br /> <br /> ==PowerPoint Presentations==<br /> <br /> ===Project meeting March 2006 Talks===<br /> <br /> *[[Media:OBO-Core-Criteria.ppt|OBO Core Criteria, Barry Smith slides]]<br /> *[[Media:AHM_Ashburner.ppt|Cambridge: Ashburner]]<br /> *[[Media:AHM_Barry.ppt|Buffalo: Smith]]<br /> *[[Media:AHM_Core1.ppt|Stanford: Murphy]]<br /> *[[Media:AHM_LexGrid.ppt|Mayo: Buntrock]]<br /> *[[Media:AHM_Monte.ppt|UOregon: Westerfield]]<br /> *[[Media:AHM_Sim.ppt|UCSF: Sim]]<br /> *[[Media:AHM_Peggy.ppt|UVic: Storey]]<br /> *[[Media:AHM_Suzi.ppt|Berkeley: Lewis]]<br /> *[[Media:AHM_OBD.ppt|Berkeley: Mungall]]<br /> <br /> ===AMIA 2005 Talks===<br /> #[[Media:Musen AMIA Panel.ppt|Mark Musen slides]]<br /> #[[Media:AMIA_Bioontology_05.pdf|Chris Chute slides]]<br /> #[[Media:SmithpanelSemantics.ppt|Barry Smith slides]]<br /> #[[Media:AMIA_Oct2005_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===CSH Talks===<br /> #[[Media:CSHL_22Oct2005_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===NCOR Talks===<br /> #[[Media:cBio-NCOR_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===Phenotype November 2005 Talks===<br /> #[[Media:Westerfield_Pheno_CSH.ppt|Monte Westerfield slides]]<br /> #[[Media:Drysdale_Pheno_CSH.ppt|Rachel Drysdale slides]]<br /> #[[Media:Mungall_Pheno_CSH.ppt|Chris Mungall slides]]<br /> <br /> ===Phenotype December 2005 Talks===<br /> * [[Media:cBioMockup_ZFIN0512.pdf|Erik Segerdell mockup]]<br /> * [[Media:cBioRequirements_ZFIN0512.doc|Melissa Haendel and Erik Segerdell requirements]]<br /> * [[Media:Uvic_viztools_Asimilar_Dec2005.ppt|Peggy Storey's (UVic) presentation on visualization]]<br /> <br /> ===NIH Kickoff Meeting Talks Dec 2005===<br /> * [[Media:cBiO NCBC kickoff mtg.ppt|Kickoff Meeting Slides]]<br /> <br /> ===HCLS===<br /> * [[Media:Musen W3C HCLS-converted.ppt|HCLS meeting]]<br /> <br /> ===Ontology Talks===<br /> * [[Media:OntologyJoy.ppt|Suzi SMI Talk]]<br /> <br /> ===PATO meeting May 2006, Hinxton===<br /> *[[Media:Phenote-pato-hinxton-may-2006.ppt|Phenote slides, Mark Gibson]]<br /> <br /> ===Berkeley-Stanford July 10 meeting===<br /> *[[Media:Phenote-stanford-july-2006.ppt|Phenote slides,Mark Gibson]]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Shared_Materials&diff=3727 2006-07-26T19:23:03Z

<p>Sima: </p> <hr /> <div>This page lists materials shared among members of cBiO<br /> <br /> ==cBiO Documents==<br /> [[Media:cbio-r01-plan.v11.doc|Collaboration Plan]]<br /> <br /> [[Media:cBiO-5-pg Center Overview.v3.doc|Center Overview 5-page document]]<br /> <br /> [[Media:cbio_flyer_v3.pdf|cBiO Brochure]]<br /> <br /> [[Media:OBO-Foundry.doc|OBO Foundry]]<br /> <br /> ==cBiO Policies and Guidelines==<br /> [[Citing the Center]]<br /> <br /> [[Acknowledgements in cBiO Papers]]<br /> <br /> ==PowerPoint Presentations==<br /> <br /> ===Project meeting March 2006 Talks===<br /> <br /> *[[Media:OBO-Core-Criteria.ppt|OBO Core Criteria, Barry Smith slides]]<br /> *[[Media:AHM_Ashburner.ppt|Cambridge: Ashburner]]<br /> *[[Media:AHM_Barry.ppt|Buffalo: Smith]]<br /> *[[Media:AHM_Core1.ppt|Stanford: Murphy]]<br /> *[[Media:AHM_LexGrid.ppt|Mayo: Buntrock]]<br /> *[[Media:AHM_Monte.ppt|UOregon: Westerfield]]<br /> *[[Media:AHM_Sim.ppt|UCSF: Sim]]<br /> *[[Media:AHM_Peggy.ppt|UVic: Storey]]<br /> *[[Media:AHM_Suzi.ppt|Berkeley: Lewis]]<br /> *[[Media:AHM_OBD.ppt|Berkeley: Mungall]]<br /> [[Nigam Shah slides on ontology-based languages]]<br /> <br /> ===AMIA 2005 Talks===<br /> #[[Media:Musen AMIA Panel.ppt|Mark Musen slides]]<br /> #[[Media:AMIA_Bioontology_05.pdf|Chris Chute slides]]<br /> #[[Media:SmithpanelSemantics.ppt|Barry Smith slides]]<br /> #[[Media:AMIA_Oct2005_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===CSH Talks===<br /> #[[Media:CSHL_22Oct2005_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===NCOR Talks===<br /> #[[Media:cBio-NCOR_SLewis.ppt|Suzi Lewis slides]]<br /> <br /> ===Phenotype November 2005 Talks===<br /> #[[Media:Westerfield_Pheno_CSH.ppt|Monte Westerfield slides]]<br /> #[[Media:Drysdale_Pheno_CSH.ppt|Rachel Drysdale slides]]<br /> #[[Media:Mungall_Pheno_CSH.ppt|Chris Mungall slides]]<br /> <br /> ===Phenotype December 2005 Talks===<br /> * [[Media:cBioMockup_ZFIN0512.pdf|Erik Segerdell mockup]]<br /> * [[Media:cBioRequirements_ZFIN0512.doc|Melissa Haendel and Erik Segerdell requirements]]<br /> * [[Media:Uvic_viztools_Asimilar_Dec2005.ppt|Peggy Storey's (UVic) presentation on visualization]]<br /> <br /> ===NIH Kickoff Meeting Talks Dec 2005===<br /> * [[Media:cBiO NCBC kickoff mtg.ppt|Kickoff Meeting Slides]]<br /> <br /> ===HCLS===<br /> * [[Media:Musen W3C HCLS-converted.ppt|HCLS meeting]]<br /> <br /> ===Ontology Talks===<br /> * [[Media:OntologyJoy.ppt|Suzi SMI Talk]]<br /> <br /> ===PATO meeting May 2006, Hinxton===<br /> *[[Media:Phenote-pato-hinxton-may-2006.ppt|Phenote slides, Mark Gibson]]<br /> <br /> ===Berkeley-Stanford July 10 meeting===<br /> *[[Media:Phenote-stanford-july-2006.ppt|Phenote slides,Mark Gibson]]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3726 2006-07-26T19:20:38Z

<p>Sima: /* Past meetings */</p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Melissa Haendel, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, David Sutherland, Monte Westerfield <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Workshop on Ontology of Diseases'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-7, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Werner Ceusters, Christopher Chute, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, Monte Westerfield<br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Workshop on Clinical Trial Ontology'''<br /> **May 16-17 2007, venue TBD<br /> **[[Workshop on Clinical Trial Ontology | information about Clinical Trial Ontology workshop]]<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall 2007?<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. 2007?, Buffalo?<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **2007?, Bethesda?<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **2007? with Andreas Califano, Columbia, NY?<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **2007?<br /> <br /> == Past meetings ==<br /> <br /> *'''9th International Protege Conference'''<br /> **July 23-26, 2006, Stanford, CA<br /> **[http://protege.stanford.edu/conference/2006/ http://protege.stanford.edu/conference/2006/]<br /> ** Attending: Chris Callendar, Christopher Chute, Tricia d'Entremont, Chris Mungall, Mark Musen, Natasha Noy, Daniel Rubin, Nigam Shah, Kaustubh Supekar<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, NIH, Bethesda, MD<br /> **Attending: Michael Ashburner, James Buntrock, Chris Callendar, Simona Carini, Louis Goldberg, Deborah McGuinness, Chris Mungall,Mark Musen, Fabian Neuhaus, Daniel Rubin, Nigam Shah, Barry Smith, Nicole Washington, Monte Westerfield <br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> **[http://www.bisti.nih.gov/ahm2006/ncbo_dissemination.htm Ontology: A Vision for the Future and Its Realization] Dissemination Event<br /> ***Organizers: Mark Musen, Barry Smith<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley, CA<br /> ** Attending: Julie Moseley, Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Christopher Chute, Harold Solbrig (Mayo); Margaret-Anne Storey (UVic); Sherri De Coronado (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley, CA<br /> ** Attending: Dilvan Moreira, Lynn Murphy, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Harold Solbrig (Mayo by phone); Chris Callendar (UVic by phone)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Attending: Werner Ceusters, Mark Musen, Barry Smith<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis, MO<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Michael Ashburner, Mark Gibson, George Gkoutos, Suzanna Lewis, Gillian Millburn, Chris Mungall, Fabian Neuhaus, Erik Segerdell, Nigam Shah, Monte Westerfield<br /> **[[Agenda PaTO | PATO meeting agenda]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Mark Gibson,Paula Mabee, Chris Mungall, Monte Westerfield<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Michael Ashburner, Suzanna Lewis, Chris Mungall, Barry Smith<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Workshop on Ontology of Images'''<br /> **March 24-25, 2006, Stanford, CA<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> **[Workshop on Ontology of Images | info on Ontology of Images workshop]<br /> ** Attending: Suzanna Lewis, Chris Mungall, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith, Kaushtubh Supekar<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Suzanna Lewis (speaker), Mark Musen (Session chair), Barry Smith<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, CA<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Deborah McGuinness (Keynote, tutorial), Mark Musen (speaker), Daniel Rubin, Kaustubh Superkar (speaker) <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte Westerfield<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford, CA<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford, CA<br /> ** Attending: Christopher Chute, Suzanna Lewis, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: James Buntrock, Christopher Chute, Tom Johnson, Chris Mungall, Deepak Sharma, Harold Solbrig<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, Washington, DC<br /> **Attending: Mark Musen<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, Berkeley, CA<br /> ** Attending: Melissa Haendel, Sierra Taylor (ZFIN); John Day-Richter, Mark Gibson, Suzanna Lewis, Chris Mungall, ShengQiang Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton, UK<br /> **Attending: Michael Ashburner (speaker)<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, Berkeley, CA<br /> ** Attending: Ben Olasov, Ida Sim (UCSF); Mark Gibson, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); Daniel Rubin (Stanford by phone)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry Smith<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry Smith<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzanna Lewis, Barry Smith<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford, CA<br /> ** Attending: Daniel Rubin (Stanford); Suzanna Lewis, Sima Misra (Berkeley); Russ Altman, Tina Boussard, Teri Klein, Mark Woon (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **January 2-6, 2006, Maui, HI<br /> **Michael Ashburner (Keynote)<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH, Bethesda, MD<br /> **Attending: Mark Musen, Suzanna Lewis, Monte Westerfield<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending: Melissa Haendel, Paula Mabee, Erik Segerdell, Monte Westerfield (ZFIN); Gillian Millburn (FlyBase); Mark Gibson, Suzanna Lewis, Chris Mungall (Berkeley); Chris Callendar, Sean Falconer, Margaret-Anne Storey (UVic)<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **December 8-11, 2005, Asilomar, CA<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Sima Misra (organizer), Chris Mungall (speaker), Monte Westerfield (speaker)<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town, SA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, Cold Spring Harbor, NY<br /> ** Attending: Michael Ashburner, John Day-Richter, George Gkoutos, Suzanna Lewis, Chris Mungall, Mark Musen, Erik Segerdell, Nigam Shah, Monte Westerfield <br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford, CA; Nov. 22, 10am-3pm, Berkeley, CA<br /> ** Attending: Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam, (Stanford); Nomi Harris, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); James Buntrock, Deepak Sharma, Harold Solbrig (Mayo by phone)<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT, Cambridge, MA<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, 2005, Cold Spring Harbor, NY<br /> **Suzanna Lewis (organizer, speaker)<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzanna Lewis, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session: making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology'''<br /> **October, 2005, Caxambu, Brazil<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Applied Biosystems Inc., Science Meeting'''<br /> **September, 2005, Asilomar, CA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner (Keynote)</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3725 2006-07-26T19:20:28Z

<p>Sima: /* Past meetings */</p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Melissa Haendel, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, David Sutherland, Monte Westerfield <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Workshop on Ontology of Diseases'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-7, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Werner Ceusters, Christopher Chute, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, Monte Westerfield<br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Workshop on Clinical Trial Ontology'''<br /> **May 16-17 2007, venue TBD<br /> **[[Workshop on Clinical Trial Ontology | information about Clinical Trial Ontology workshop]]<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall 2007?<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. 2007?, Buffalo?<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **2007?, Bethesda?<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **2007? with Andreas Califano, Columbia, NY?<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **2007?<br /> <br /> == Past meetings ==<br /> <br /> *'''9th International Protege Conference'''<br /> **July 23-26, 2006, Stanford, CA<br /> **[http://protege.stanford.edu/conference/2006/ http://protege.stanford.edu/conference/2006/]<br /> ** Attending: Chris Callendar, Christopher Chute, Tricia d'Entremont, Chris Mungall, Mark Musen, Natasha Noy, Daniel Rubin, Nigam Shah, Kaustubh Supekar<br /> <br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, NIH, Bethesda, MD<br /> **Attending: Michael Ashburner, James Buntrock, Chris Callendar, Simona Carini, Louis Goldberg, Deborah McGuinness, Chris Mungall,Mark Musen, Fabian Neuhaus, Daniel Rubin, Nigam Shah, Barry Smith, Nicole Washington, Monte Westerfield <br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> **[http://www.bisti.nih.gov/ahm2006/ncbo_dissemination.htm Ontology: A Vision for the Future and Its Realization] Dissemination Event<br /> ***Organizers: Mark Musen, Barry Smith<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley, CA<br /> ** Attending: Julie Moseley, Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Christopher Chute, Harold Solbrig (Mayo); Margaret-Anne Storey (UVic); Sherri De Coronado (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley, CA<br /> ** Attending: Dilvan Moreira, Lynn Murphy, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Harold Solbrig (Mayo by phone); Chris Callendar (UVic by phone)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Attending: Werner Ceusters, Mark Musen, Barry Smith<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis, MO<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Michael Ashburner, Mark Gibson, George Gkoutos, Suzanna Lewis, Gillian Millburn, Chris Mungall, Fabian Neuhaus, Erik Segerdell, Nigam Shah, Monte Westerfield<br /> **[[Agenda PaTO | PATO meeting agenda]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Mark Gibson,Paula Mabee, Chris Mungall, Monte Westerfield<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Michael Ashburner, Suzanna Lewis, Chris Mungall, Barry Smith<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Workshop on Ontology of Images'''<br /> **March 24-25, 2006, Stanford, CA<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> **[Workshop on Ontology of Images | info on Ontology of Images workshop]<br /> ** Attending: Suzanna Lewis, Chris Mungall, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith, Kaushtubh Supekar<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Suzanna Lewis (speaker), Mark Musen (Session chair), Barry Smith<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, CA<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Deborah McGuinness (Keynote, tutorial), Mark Musen (speaker), Daniel Rubin, Kaustubh Superkar (speaker) <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte Westerfield<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford, CA<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford, CA<br /> ** Attending: Christopher Chute, Suzanna Lewis, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: James Buntrock, Christopher Chute, Tom Johnson, Chris Mungall, Deepak Sharma, Harold Solbrig<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, Washington, DC<br /> **Attending: Mark Musen<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, Berkeley, CA<br /> ** Attending: Melissa Haendel, Sierra Taylor (ZFIN); John Day-Richter, Mark Gibson, Suzanna Lewis, Chris Mungall, ShengQiang Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton, UK<br /> **Attending: Michael Ashburner (speaker)<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, Berkeley, CA<br /> ** Attending: Ben Olasov, Ida Sim (UCSF); Mark Gibson, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); Daniel Rubin (Stanford by phone)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry Smith<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry Smith<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzanna Lewis, Barry Smith<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford, CA<br /> ** Attending: Daniel Rubin (Stanford); Suzanna Lewis, Sima Misra (Berkeley); Russ Altman, Tina Boussard, Teri Klein, Mark Woon (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **January 2-6, 2006, Maui, HI<br /> **Michael Ashburner (Keynote)<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH, Bethesda, MD<br /> **Attending: Mark Musen, Suzanna Lewis, Monte Westerfield<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending: Melissa Haendel, Paula Mabee, Erik Segerdell, Monte Westerfield (ZFIN); Gillian Millburn (FlyBase); Mark Gibson, Suzanna Lewis, Chris Mungall (Berkeley); Chris Callendar, Sean Falconer, Margaret-Anne Storey (UVic)<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **December 8-11, 2005, Asilomar, CA<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Sima Misra (organizer), Chris Mungall (speaker), Monte Westerfield (speaker)<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town, SA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, Cold Spring Harbor, NY<br /> ** Attending: Michael Ashburner, John Day-Richter, George Gkoutos, Suzanna Lewis, Chris Mungall, Mark Musen, Erik Segerdell, Nigam Shah, Monte Westerfield <br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford, CA; Nov. 22, 10am-3pm, Berkeley, CA<br /> ** Attending: Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam, (Stanford); Nomi Harris, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); James Buntrock, Deepak Sharma, Harold Solbrig (Mayo by phone)<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT, Cambridge, MA<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, 2005, Cold Spring Harbor, NY<br /> **Suzanna Lewis (organizer, speaker)<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzanna Lewis, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session: making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology'''<br /> **October, 2005, Caxambu, Brazil<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Applied Biosystems Inc., Science Meeting'''<br /> **September, 2005, Asilomar, CA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner (Keynote)</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3724 2006-07-26T18:44:17Z

<p>Sima: </p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Melissa Haendel, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, David Sutherland, Monte Westerfield <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Workshop on Ontology of Diseases'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-7, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Werner Ceusters, Christopher Chute, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, Monte Westerfield<br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Workshop on Clinical Trial Ontology'''<br /> **May 16-17 2007, venue TBD<br /> **[[Workshop on Clinical Trial Ontology | information about Clinical Trial Ontology workshop]]<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall 2007?<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. 2007?, Buffalo?<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **2007?, Bethesda?<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **2007? with Andreas Califano, Columbia, NY?<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **2007?<br /> <br /> == Past meetings ==<br /> <br /> *'''9th International Protege Conference'''<br /> **July 23-26, 2006, Stanford, CA<br /> <br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, NIH, Bethesda, MD<br /> **Attending: Michael Ashburner, James Buntrock, Chris Callendar, Simona Carini, Louis Goldberg, Deborah McGuinness, Chris Mungall,Mark Musen, Fabian Neuhaus, Daniel Rubin, Nigam Shah, Barry Smith, Nicole Washington, Monte Westerfield <br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> **[http://www.bisti.nih.gov/ahm2006/ncbo_dissemination.htm Ontology: A Vision for the Future and Its Realization] Dissemination Event<br /> ***Organizers: Mark Musen, Barry Smith<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley, CA<br /> ** Attending: Julie Moseley, Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Christopher Chute, Harold Solbrig (Mayo); Margaret-Anne Storey (UVic); Sherri De Coronado (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley, CA<br /> ** Attending: Dilvan Moreira, Lynn Murphy, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Harold Solbrig (Mayo by phone); Chris Callendar (UVic by phone)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Attending: Werner Ceusters, Mark Musen, Barry Smith<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis, MO<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Michael Ashburner, Mark Gibson, George Gkoutos, Suzanna Lewis, Gillian Millburn, Chris Mungall, Fabian Neuhaus, Erik Segerdell, Nigam Shah, Monte Westerfield<br /> **[[Agenda PaTO | PATO meeting agenda]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Mark Gibson,Paula Mabee, Chris Mungall, Monte Westerfield<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Michael Ashburner, Suzanna Lewis, Chris Mungall, Barry Smith<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Workshop on Ontology of Images'''<br /> **March 24-25, 2006, Stanford, CA<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> **[Workshop on Ontology of Images | info on Ontology of Images workshop]<br /> ** Attending: Suzanna Lewis, Chris Mungall, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith, Kaushtubh Supekar<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Suzanna Lewis (speaker), Mark Musen (Session chair), Barry Smith<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, CA<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Deborah McGuinness (Keynote, tutorial), Mark Musen (speaker), Daniel Rubin, Kaustubh Superkar (speaker) <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte Westerfield<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford, CA<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford, CA<br /> ** Attending: Christopher Chute, Suzanna Lewis, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: James Buntrock, Christopher Chute, Tom Johnson, Chris Mungall, Deepak Sharma, Harold Solbrig<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, Washington, DC<br /> **Attending: Mark Musen<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, Berkeley, CA<br /> ** Attending: Melissa Haendel, Sierra Taylor (ZFIN); John Day-Richter, Mark Gibson, Suzanna Lewis, Chris Mungall, ShengQiang Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton, UK<br /> **Attending: Michael Ashburner (speaker)<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, Berkeley, CA<br /> ** Attending: Ben Olasov, Ida Sim (UCSF); Mark Gibson, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); Daniel Rubin (Stanford by phone)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry Smith<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry Smith<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzanna Lewis, Barry Smith<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford, CA<br /> ** Attending: Daniel Rubin (Stanford); Suzanna Lewis, Sima Misra (Berkeley); Russ Altman, Tina Boussard, Teri Klein, Mark Woon (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **January 2-6, 2006, Maui, HI<br /> **Michael Ashburner (Keynote)<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH, Bethesda, MD<br /> **Attending: Mark Musen, Suzanna Lewis, Monte Westerfield<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending: Melissa Haendel, Paula Mabee, Erik Segerdell, Monte Westerfield (ZFIN); Gillian Millburn (FlyBase); Mark Gibson, Suzanna Lewis, Chris Mungall (Berkeley); Chris Callendar, Sean Falconer, Margaret-Anne Storey (UVic)<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **December 8-11, 2005, Asilomar, CA<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Sima Misra (organizer), Chris Mungall (speaker), Monte Westerfield (speaker)<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town, SA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, Cold Spring Harbor, NY<br /> ** Attending: Michael Ashburner, John Day-Richter, George Gkoutos, Suzanna Lewis, Chris Mungall, Mark Musen, Erik Segerdell, Nigam Shah, Monte Westerfield <br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford, CA; Nov. 22, 10am-3pm, Berkeley, CA<br /> ** Attending: Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam, (Stanford); Nomi Harris, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); James Buntrock, Deepak Sharma, Harold Solbrig (Mayo by phone)<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT, Cambridge, MA<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, 2005, Cold Spring Harbor, NY<br /> **Suzanna Lewis (organizer, speaker)<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzanna Lewis, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session: making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology'''<br /> **October, 2005, Caxambu, Brazil<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''Applied Biosystems Inc., Science Meeting'''<br /> **September, 2005, Asilomar, CA<br /> **Michael Ashburner (Keynote)<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner (Keynote)</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3723 2006-07-26T18:17:22Z

<p>Sima: </p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Melissa Haendel, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, David Sutherland, Monte Westerfield <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Workshop on Ontology of Diseases'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-7, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Werner Ceusters, Christopher Chute, Suzanna Lewis, Chris Mungall, Fabian Neuhaus, Nigam Shah, Barry Smith, Monte Westerfield<br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Workshop on Clinical Trial Ontology'''<br /> **May 16-17 2007, venue TBD<br /> **[[Workshop on Clinical Trial Ontology | information about Clinical Trial Ontology workshop]]<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall 2007?<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. 2007?, Buffalo?<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **2007?, Bethesda?<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **2007? with Andreas Califano, Columbia, NY?<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **?<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, NIH, Bethesda, MD<br /> **Attending: Michael Ashburner, James Buntrock, Chris Callendar, Simona Carini, Louis Goldberg, Deborah McGuinness, Chris Mungall,Mark Musen, Fabian Neuhaus, Daniel Rubin, Nigam Shah, Barry Smith, Nicole Washington, Monte Westerfield <br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> **[http://www.bisti.nih.gov/ahm2006/ncbo_dissemination.htm Ontology: A Vision for the Future and Its Realization] Dissemination Event<br /> ***Organizers: Mark Musen, Barry Smith<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Julie Moseley, Lynn Murphy, Mark Musen, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Christopher Chute, Harold Solbrig (Mayo); Margaret-Anne Storey (UVic); Sherri De Coronado (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Dilvan Moreira, Lynn Murphy, Daniel Rubin, Nigam Shah, Archana Vembakam (Stanford); Suzanna Lewis, Chris Mungall, ShengQiang Shu, Nicole Washington (Berkeley); James Buntrock, Harold Solbrig (Mayo by phone); Chris Callendar (UVic by phone)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Attending: Werner Ceusters, Mark Musen, Barry Smith<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Michael Ashburner, Mark Gibson, George Gkoutos, Suzanna Lewis, Gillian Millburn, Chris Mungall, Fabian Neuhaus, Erik Segerdell, Nigam Shah, Monte Westerfield<br /> **[[Agenda PaTO | PATO meeting agenda]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Mark Gibson,Paula Mabee, Chris Mungall, Monte Westerfield<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Michael Ashburner, Suzanna Lewis, Chris Mungall, Barry Smith<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Workshop on Ontology of Images'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> **[Workshop on Ontology of Images | info on Ontology of Images workshop]<br /> ** Attending: Suzanna Lewis, Chris Mungall, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith, Kaushtubh Supekar<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Suzanna Lewis (speaker), Mark Musen (Session chair), Barry Smith<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Deborah McGuinness(keynote, tutorial), Mark Musen (speaker), Daniel Rubin, Kaustubh Superkar(speaker) <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte Westerfield<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Christopher Chute, Suzanna Lewis, Mark Musen, Daniel Rubin, Nigam Shah, Barry Smith<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: James Buntrock, Christopher Chute, Tom Johnson, Chris Mungall, Deepak Sharma, Harold Solbrig<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark Musen<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa Haendel, Sierra Taylor (ZFIN); John Day-Richter, Mark Gibson, Suzanna Lewis, Chris Mungall, ShengQiang Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner (speaker)<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ben Olasov, Ida Sim (UCSF); Mark Gibson, Suzanna Lewis, Sima Misra, Chris Mungall, ShengQiang Shu (Berkeley); Daniel Rubin (Stanford-by phone)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry Smith<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry Smith<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3722 2006-07-26T17:44:45Z

<p>Sima: </p> <hr /> <div>== Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006, Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael Ashburner, Suzanna Lewis (Keynote speaker for Bio-ontologies SIG)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael Ashburner, Suzanna Lewis, Monte Westerfield, Barry Smith, Fabian Neuhaus, Melissa Haendel, David Sutherland <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **[http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml http://genetics.faseb.org/genetics/ashg/menu-annmeet.shtml]<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry Smith, Suzanna Lewis, Chris Mungall, Rex Chisholm, Monte Westerfield, Fabian Neuhaus <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> **Attending: Suzanna Lewis, Michael Ashburner, Monte Westerfield<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, Jim, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole<br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3721 2006-07-26T17:39:09Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, Jim, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole<br /> **[http://www.bisti.nih.gov/ahm2006/ http://www.bisti.nih.gov/ahm2006/]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3717 2006-07-25T18:47:10Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August 14-18, 2006. Stanford University<br /> **[http://www.lifesciencessociety.org/CSB2006/index.html http://www.lifesciencessociety.org/CSB2006/index.html]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, Jim, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3716 2006-07-25T18:22:57Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, Jim, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3715 2006-07-25T18:21:49Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, Jim, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3620 2006-06-29T21:24:04Z

<p>Sima: /* Venue */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the [http://obo.sourceforge.net/cgi-bin/detail.cgi?attribute_and_value Phenotype and Trait Ontology (PATO)] December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Draft agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** 7pm: Informal gathering for dinner (Gordon Biersch?)<br /> <br /> *Friday, December 1, 2006<br /> **8:30 - 5:30pm Meeting<br /> ***Introduction to PaTO<br /> ***Phenote<br /> <br /> *Saturday, December 2, 2006<br /> **8:30 - 5:30pm Meeting<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions to Stanford Medical Center]<br /> <br /> [http://med.stanford.edu/maps/sumc.html Map of Stanford Medical Center]--see &quot;C&quot;, Clark Center<br /> <br /> [http://transportation.stanford.edu/marguerite/MargueriteSched.shtml Directions on taking Free Marguerite Shuttle Bus]--take Line A to Medical Center<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3619 2006-06-29T21:23:15Z

<p>Sima: </p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the [http://obo.sourceforge.net/cgi-bin/detail.cgi?attribute_and_value Phenotype and Trait Ontology (PATO)] December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Draft agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** 7pm: Informal gathering for dinner (Gordon Biersch?)<br /> <br /> *Friday, December 1, 2006<br /> **8:30 - 5:30pm Meeting<br /> ***Introduction to PaTO<br /> ***Phenote<br /> <br /> *Saturday, December 2, 2006<br /> **8:30 - 5:30pm Meeting<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions to Stanford Medical Center]<br /> <br /> [http://med.stanford.edu/maps/sumc.html Map of Stanford Medical Center]<br /> <br /> [http://transportation.stanford.edu/marguerite/MargueriteSched.shtml Directions on taking Free Marguerite Shuttle Bus--take Line A to Medical Center]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3618 2006-06-29T21:20:13Z

<p>Sima: /* Tentative agenda */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the [http://obo.sourceforge.net/cgi-bin/detail.cgi?attribute_and_value Phenotype and Trait Ontology (PATO)] December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Draft agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** 7pm: Informal gathering for dinner (Gordon Biersch?)<br /> <br /> *Friday, December 1, 2006<br /> **8:30 - 5:30pm Meeting<br /> ***Introduction to PaTO<br /> ***Phenote<br /> <br /> *Saturday, December 2, 2006<br /> **8:30 - 5:30pm Meeting<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3617 2006-06-29T21:17:15Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, James Buntrock, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole Washington<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall NCBO Project Meeting'''<br /> **Oct. 23-25, 2006, Stanford<br /> ** All Hands meeting<br /> ** Advisory Comm. &amp; NIH Program &amp; Science officers invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Julie (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Sherri (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3611 2006-06-28T00:35:49Z

<p>Sima: /* General Information */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the [http://obo.sourceforge.net/cgi-bin/detail.cgi?attribute_and_value Phenotype and Trait Ontology (PATO)] December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Tentative agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** Dinner<br /> <br /> *Friday, December 1, 2006<br /> **9am - 6pm Meeting<br /> <br /> *Saturday, December 2, 2006<br /> **9am - 6pm Meeting<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3610 2006-06-28T00:34:45Z

<p>Sima: /* Tentative agenda */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the Phenotype and Trait Ontology December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Tentative agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** Dinner<br /> <br /> *Friday, December 1, 2006<br /> **9am - 6pm Meeting<br /> <br /> *Saturday, December 2, 2006<br /> **9am - 6pm Meeting<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3609 2006-06-28T00:34:03Z

<p>Sima: /* Venue */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the Phenotype and Trait Ontology December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Tentative agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** Dinner<br /> <br /> *Friday, December 1, 2006<br /> **9am - 6pm<br /> <br /> *Saturday, December 2, 2006<br /> **9am - 6pm<br /> <br /> ==Venue ==<br /> [http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]<br /> <br /> [http://med.stanford.edu/maps/ Directions]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3608 2006-06-28T00:33:48Z

<p>Sima: /* Venue */</p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the Phenotype and Trait Ontology December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Tentative agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** Dinner<br /> <br /> *Friday, December 1, 2006<br /> **9am - 6pm<br /> <br /> *Saturday, December 2, 2006<br /> **9am - 6pm<br /> <br /> ==Venue ==<br /> [[http://www.stanford.edu/home/welcome/campus/clark.html Stanford University Clark Center, room S360]]<br /> <br /> [[http://med.stanford.edu/maps/ Directions]]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=PATO_Meeting&diff=3607 2006-06-28T00:33:05Z

<p>Sima: </p> <hr /> <div>== General Information == <br /> The [http://ncbo.us National Center for Biomedical Ontology] will host a two-day meeting focused on the Phenotype and Trait Ontology December 1-2, 2006 at Stanford University in Palo Alto, CA.<br /> <br /> ==Tentative agenda==<br /> <br /> *Thursday, November 30, 2006<br /> ** Dinner<br /> <br /> *Friday, December 1, 2006<br /> **9am - 6pm<br /> <br /> *Saturday, December 2, 2006<br /> **9am - 6pm<br /> <br /> ==Venue ==<br /> [[Stanford University Clark Center, room S360]]<br /> <br /> [[Directions]]<br /> <br /> ==Accommodations==<br /> <br /> We aren't reserving a block of rooms anywhere, but these local hotels are close by and have Stanford shuttle service.<br /> <br /> *[http://www.hotelcalifornia.com/ Hotel California]<br /> *[http://www.cardinalhotel.com/ Cardinal Hotel]<br /> *[http://woodsidehotels.com/stanford/index.html Stanford Park Hotel]<br /> *[http://www.starwoodhotels.com/sheraton/property/overview/index.html?propertyID=214 Sheraton]</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3606 2006-06-28T00:27:01Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Dilvan (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Carol? (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, James Buntrock, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006, Stanford University Clark Center<br /> ** [[PATO Meeting | information about the PATO Meeting]]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3605 2006-06-28T00:25:01Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Dilvan (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Carol? (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Louis Goldberg, James Buntrock, Monte, Michael, Chris Callendar, Simona Carini, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 2, 2006<br /> ** [http://med.stanford.edu/maps/ Stanford University, Clark Center, room S360]<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3550 2006-06-14T16:13:29Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Dilvan (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Carol? (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Clinical trial ontology workshop'''<br /> **Mid-May 2007, near FDA<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Spatial reasoning over ontologies'''<br /> **Fall, 2007<br /> <br /> *'''Ontology Training workshops for training workshops'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3549 2006-06-13T19:59:29Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam, Dilvan (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic); Carol? (NIH)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Main_Page&diff=3548 2006-06-13T19:25:52Z

<p>Sima: /* NCBO Links */</p> <hr /> <div>Welcome to the '''NCBO Public WIKI'''. This WIKI provides information about collaborative ontology development efforts, &lt;br&gt;<br /> dissemination events conducted by the NCBO and publically shared materials from the NCBO.<br /> <br /> <br /> === NCBO Links ===<br /> *[http://www.bioontology.org/ NCBO Home page]<br /> *[http://www.bioontology.org/wiki/index.php/CBio_FAQ NCBO FAQ]<br /> *[[Meetings and Events]]<br /> <br /> === Shared Materials===<br /> <br /> *[[Shared Materials]]<br /> <br /> *[[Evaluation Activities]]<br /> <br /> === Other NCBC Links ===<br /> <br /> *[http://www.bisti.nih.gov/ncbc/ NCBC Home page]<br /> <br /> *[http://wiki.na-mic.org/Wiki/index.php/SDIWG:Software_and_Data_Integration_Working_Group NCBC Software and Data Integration Working Group (SDIWG) and Centers Discussion]<br /> <br /> === Ontology Development Area ===<br /> <br /> *[[Phenotype Reading List]]<br /> <br /> <br /> <br /> <br /> <br /> <br /> Please see [http://meta.wikipedia.org/wiki/MediaWiki_i18n documentation on customizing the interface]<br /> and the [http://meta.wikipedia.org/wiki/MediaWiki_User%27s_Guide User's Guide] for usage and configuration help.</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3532 2006-06-06T18:04:11Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> **[[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Attending: Mark, Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Sima, Shu, Nicole (Berkeley); Chris Chute, Jim, Harold (Mayo); Peggy (UVic)<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3527 2006-06-06T16:45:53Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam, Dilvan Moreira (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Callendar (UVic)<br /> **[[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=File:Hinxton.PATO.mtg.doc&diff=3521 2006-06-05T21:20:45Z

<p>Sima: </p> <hr /> <div></div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3519 2006-06-05T21:18:20Z

<p>Sima: /* Past meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Ca (UVic)<br /> **[[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3518 2006-06-05T21:17:28Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Ca (UVic)<br /> **[[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3517 2006-06-05T21:17:17Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Ca (UVic)<br /> *[[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3516 2006-06-05T21:17:06Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Ca (UVic)<br /> [[Agenda%2C_Core_1_%26_2_Meeting%2C_Friday%2C_June_9%2C_2006|Agenda]]<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3515 2006-06-05T21:16:18Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> <br /> * '''Core 1 &amp; 2 Meeting'''<br /> ** June 9, 2006, Berkeley<br /> ** Attending: Daniel, Archana, Lynn, Nigam (Stanford); Suzi, Chris M., Shu, Nicole (Berkeley); Jim, Harold (Mayo); Chris Ca (UVic)<br /> <br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Main_Page&diff=3455 2006-06-01T17:48:20Z

<p>Sima: </p> <hr /> <div>Welcome to the NCBO WIKI!&lt;br&gt;<br /> <br /> <br /> === NCBO Links ===<br /> *[http://www.bioontology.org/ cBio Home page]<br /> <br /> *[http://datebook.stanford.edu:88/cBiO_Calendar cBio calendar]<br /> <br /> *[[CBiO_Email_Lists]]<br /> <br /> === NCBO Work Materials===<br /> <br /> *[[Teleconference Instructions]]<br /> <br /> *[[Meeting Agendas and Minutes]]<br /> <br /> *[[Meetings and Events]]<br /> <br /> *[[Action Items]]<br /> <br /> *[[Shared Materials]]<br /> <br /> *[[Possible Collaborations]]<br /> <br /> *[[Evaluation Activities]]<br /> <br /> === NCBC Links ===<br /> <br /> *[http://www.bisti.nih.gov/ncbc/ NCBC Home page]<br /> <br /> *[http://wiki.na-mic.org/Wiki/index.php/SDIWG:Software_and_Data_Integration_Working_Group NCBC Software and Data Integration Working Group (SDIWG) and Centers Discussion]<br /> <br /> === Developers Area ===<br /> *[[OBO Development]]<br /> *[[OBD Development]]<br /> *[[Phenotype Reading List]]<br /> *[[cBio FAQ]]<br /> *[[Logo Design]]<br /> <br /> <br /> <br /> <br /> <br /> Please see [http://meta.wikipedia.org/wiki/MediaWiki_i18n documentation on customizing the interface]<br /> and the [http://meta.wikipedia.org/wiki/MediaWiki_User%27s_Guide User's Guide] for usage and configuration help.</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3351 2006-05-30T19:19:39Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3350 2006-05-30T17:38:15Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> **[[Agenda PaTO]]<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> *'''PATO meeting'''<br /> **November 30-December 1, 2006<br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3096 2006-05-12T18:16:46Z

<p>Sima: /* Past meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, Jim, Tom<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=3095 2006-05-12T18:14:30Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Deborah, Nigam, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2954 2006-05-03T17:00:30Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Fabian, Monte, Michael, Harold Solbrig, Chris Callendar, Chris Mungall, Nicole Washington<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2940 2006-05-02T21:33:18Z

<p>Sima: </p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G., Fabian, Nigam<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** Tentatively June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2912 2006-04-24T21:14:57Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 17-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G.<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** Tentatively June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=File:Core2ProjectPlan.xml.zip&diff=2895 2006-04-20T20:47:38Z

<p>Sima: </p> <hr /> <div></div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2893 2006-04-20T20:43:19Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 19-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G.<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1 &amp; 2 Project Meeting'''<br /> ** Tentatively June 27-28, 2006, Berkeley<br /> ** Working plan for core 1 &amp; 2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2892 2006-04-20T20:42:58Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 19-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G.<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1/2 Project Meeting'''<br /> ** Tentatively June 27-28, 2006, Berkeley<br /> ** Working plan for core 1/2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2891 2006-04-20T20:42:46Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 19-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G.<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> * '''Core 1/2 Project Meeting'''<br /> ** Tentatively June 27-28, 2006, Berkeley<br /> *#* Working plan for core 1/2 goals<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''Fall Project Meeting'''<br /> **Tentatively Oct. 23-25, 2006, Stanford<br /> ** Advisory Board invited<br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima https://www.bioontology.org//mediawiki/index.php?title=Meetings_and_Events&diff=2884 2006-04-19T18:35:02Z

<p>Sima: /* Upcoming meetings */</p> <hr /> <div>On the [http://datebook.stanford.edu:88/cBiO_Calendar internal calendar].<br /> <br /> <br /> == Upcoming meetings ==<br /> <br /> *'''Phenotype Annotation Meeting'''<br /> **May 19-20, Hinxton, UK<br /> **Attending: Monte, Erik, Michael, George, Gillian, Suzi, Chris M., Mark G.<br /> <br /> *'''Training Course in Biomedical Ontologies'''<br /> **[http://ontology.buffalo.edu/06/os2/index.html http://ontology.buffalo.edu/06/os2/index.html]<br /> **May 21-24, 2006, Schloss Dagstuhl, Germany<br /> **Barry<br /> <br /> *'''NSF/RCN workshop on ontology and phylogeny'''<br /> **May 21-24, St. Louis<br /> **Attending: Michael, Suzi, Monte<br /> <br /> *'''NCBC Biomedical Ontology Workshop'''<br /> **Later in 2006<br /> **Other NCBC's<br /> <br /> *'''NCBC All Hands Meeting'''<br /> **July 17-19, 2006, Washington, DC<br /> **Attending: Mark, Daniel, Barry, Monte, Michael, Chris Ch., Peggy or Chris Ca., Chris M.<br /> <br /> *'''In Silico Analysis of Proteins. Celebrating the 20th Anniversary of Swiss-Prot'''<br /> **Jul 30- August 4, 2006, Fortaleza, Brazil.<br /> ** [http://www.swissprot20.org/ http://www.swissprot20.org/]<br /> ** Attending: Michael Ashburner, Suzi<br /> <br /> *'''ISMB, 2006'''<br /> **August 6-10, 2006. Fortaleza, Brazil.<br /> ** [http://ismb2006.cbi.cnptia.embrapa.br/ http://ismb2006.cbi.cnptia.embrapa.br/]<br /> ** Attending: Michael, Suzi (Keynote speaker in Bio-ontologies)<br /> <br /> *'''IEEE Computational Systems Bioinformatics, 2006'''<br /> *August, 2006. Stanford University<br /> **[http://conferences.computer.org/bioinformatics/ http://conferences.computer.org/bioinformatics/]<br /> ** Attending: Mark Musen (Keynote speaker), rest of Stanford group (tutorial in bioontologies/semantic web)<br /> <br /> *'''Anatomy Ontology Workshop'''<br /> **September 8-9, 2006, Seattle<br /> **[[Anatomy Ontology Workshop | information on the Anatomy Ontology Workshop]]<br /> **Attending: Michael, Suzi, Monte, Barry, Fabian, Melissa, David <br /> <br /> *'''American Society of Human Genetics'''<br /> **October 9-13, 2006, New Orleans, LA<br /> **Presentation to find collaborators, also ontology workshop<br /> <br /> *'''Disease Ontology Workshop'''<br /> **In association with FOIS 2006 (Formal Ontology and Information Systems)<br /> **November 6-8, 2006, John Hopkins University, Baltimore<br /> **[[Workshop on Ontology of Diseases | information on the Disease Ontology Workshop]]<br /> **Attending: Barry, Suzi, Chris, Rex, Monte, Fabian <br /> <br /> ----<br /> '''2007'''<br /> <br /> *'''Ontology Interoperability in Biomedicine'''<br /> **March 27-30, 2007, Dagstuhl, Germany<br /> **Invitation only<br /> <br /> *'''Dagstuhl Seminarium: Ontologies and Text Mining for Life Sciences'''<br /> **July 23-27, 2007: Dagstuhl, Germany<br /> **Organizers: Ulf Leser, Dietrich Rebholz-Schuhmann &amp; Michael Ashburner<br /> ** Attending: Michael Ashburner<br /> **[http://www.dagstuhl.de/07301 http://www.dagstuhl.de/07301]<br /> <br /> *'''Ontology Summer School'''<br /> **Aug. ??? 2007, Buffalo<br /> <br /> *'''NECTAR Clinical Research Ontology Workshop'''<br /> **???, 2007, Bethesda ???<br /> <br /> *'''All NCBCs Ontology workshop'''<br /> **???, 2007 with Andreas Califano, Columbia, NY???<br /> <br /> * '''Phenotype Ontology (Upper Level) workshop'''<br /> **???<br /> <br /> == Past meetings ==<br /> <br /> *'''Fish Evolutionary Biology Working Group Meeting'''<br /> **April 9-11, National Evolutionary Synthesis Center (NESCent), Durham, NC<br /> **Attending: Monte, Paula, Mark G., Chris M.<br /> <br /> *'''Gene Ontology Workshop'''<br /> **March 31-April 3, 2006, St. Croix<br /> ** Attending: Barry, Michael, Suzi, Chris M.<br /> <br /> * '''Bio-IT LifeSciences Conference'''<br /> **April 3-6, 2006, Boston, MA'''<br /> **[http://www.lifesciencesexpo.com/live/26/ http://www.lifesciencesexpo.com/live/26/]<br /> ** Speaker: Michael Ashburner, Ben Franklin Award Lecture.<br /> <br /> *'''Biomedical Image Ontology Workshop'''<br /> **March 24-25, 2006, Stanford University<br /> **[http://www.loni.ucla.edu/CCB/ CCB NCBC] and others with biomedical image ontologies<br /> ** Attending: Barry, Suzi, Stanford Group<br /> <br /> *'''Immunology Ontology Workshop: NIAID'''<br /> **March 21-22, 2006, Gaitherburg, MD<br /> ** Attending: Mark (Session chair), Suzi (speaker), Barry<br /> <br /> *'''Semantic Technology Conference'''<br /> **March 6-9, 2006, San Jose, California<br /> ** [http://www.semantic-conference.com/ http://www.semantic-conference.com/ ]<br /> ** Attending: Mark Musen(talk), Deborah McGuinness(keynote, tutorial), Daniel Rubin and Kaustubh Superkar(talk), <br /> <br /> *'''NIH NCRR Animal Models workshop'''<br /> **March 6-7, 2006, Bethesda, MD<br /> ** Attending: Monte<br /> <br /> *'''[[Minutes &amp; presentations, March 2-4, 2006 Project meeting|cBio Project Meeting]]'''<br /> **March 2-4, 2006, Stanford University<br /> ** [[Agenda, Project Meeting, Thursday, March 2-Saturday, March 4, 2006|Agenda]]<br /> **[http://www.smi.stanford.edu/research/cbio/cbio_meeting.html http://www.smi.stanford.edu/research/cbio/cbio_meeting.html]<br /> **Entire project, NIH Program &amp; Lead Science officers <br /> <br /> *'''BIRN ontology workshop'''<br /> **February 28-March 1, 2006, Stanford<br /> ** Attending: Carol, Chris C., Suzi, Barry, Stanford group<br /> <br /> *'''NLM vocabulary collection and distribution meeting'''<br /> **February 27-28, 2006, NLM, Washington, DC<br /> ** Attending: Chris M., Chris C., Harold, Deepak, James, Tom, John?, Archana?<br /> <br /> *'''[[cBIO Project Meeting|cbio_proj_meeting_0306]]'''<br /> **March 2-4, 2006<br /> <br /> *'''NIAID meeting'''<br /> **February, 2006, DC<br /> **Attending: Mark M.<br /> <br /> *'''cBio Phenotype Annotation tool specification'''<br /> **February 21-23, 2006, LBNL<br /> ** Attending: Melissa &amp; Sierra (ZFIN), Suzi, Chris M., Mark G., John, Shu (Berkeley)<br /> <br /> *'''Mini-Syposium on Semantic Enrichment of Scientific Literature'''<br /> **February 20, 2006 at the European Bioinformatics Institute, Hinxton<br /> **Attending: Michael Ashburner [talk]<br /> <br /> *'''cBio OBD specification'''<br /> **February 17, 2006, LBNL<br /> ** Attending: Ida &amp; Ben (UCSF), Daniel (Stanford), Suzi, Chris M., Mark G., Sima, Shu (Berkeley)<br /> <br /> *'''FuGO meeting'''<br /> ** February 13-15, 2006, Penn, Philadelphia, PA<br /> **[http://fugo.sourceforge.net/news/index.php http://fugo.sourceforge.net/news/index.php]<br /> **Attending: Barry<br /> <br /> *'''Fourth Semantic Interoperability for E-Government Conference'''<br /> ** February 9-10, 2006, MITRE, McLean, VA<br /> ** [http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910 http://colab.cim3.net/cgi-bin/wiki.pl?FourthSemanticInteroperabilityforEGovernmentConference_2006_2_0910]<br /> **Attending: Barry<br /> <br /> *'''NIAID BRC3 and Inter Operability Working Group meeting'''<br /> ** February 6-7, 2006, Philadelphia, PA<br /> ** [http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm http://www.niaid.nih.gov/dmid/genomes/brc/brc3.htm]<br /> ** Attending: Suzi, Barry<br /> <br /> *'''PharmGKB and cBiO meeting'''<br /> ** January 31, 2006, Stanford<br /> ** Attending: Daniel (Stanford), Suzi &amp; Sima (Berkeley), Teri Klein, Tina Boussard, Mark Woon, Russ Altman (PharmGKB)<br /> <br /> *'''Pacific Symposium on Biocomputing, 2006'''<br /> **Maui, HI, January 2-6, 2006<br /> **Michael Ashburner, Keynote.<br /> **[http://psb.stanford.edu/ http://psb.stanford.edu/]<br /> <br /> *'''NCBC Meeting'''<br /> **Dec. 15-16, NIH<br /> **Attending: Mark, Suzi, Monte<br /> **Introducting new NCBCs to each other and NIH staff<br /> <br /> *'''Phenotype Annotation Meeting''' <br /> **December 11-12, 2005, [http://www.visitasilomar.com/ Asilomar conference center]<br /> ** Attending<br /> *** From ZFIN: Monte Westerfield, Erik Segerdell, Melissa Haendel, Paula Mabee<br /> *** From FlyBase: Gillian Millburn <br /> *** From Berkeley: Suzi Lewis, Chris Mungall, Mark Gibson<br /> *** From Victoria: Peggy Storey, Chris Callendar, Sean Falconer<br /> ** Define requirements of phenotype annotation tools<br /> <br /> *'''International Biocurator Meeting'''<br /> **Asilomar, December 8-11, 2005<br /> **[http://biocurator.org/intnlbiocurator.html http://biocurator.org/intnlbiocurator.html]<br /> **Attending: Monte Westerfield (speaker), Chris Mungall (speaker), Sima<br /> <br /> *'''National Bioinformatics Network, South Africa'''<br /> **December 2, 2005, University of Cape Town.<br /> **Michael Ashburner, Keynote talk at Official Opening.<br /> <br /> *'''Phenotype Ontology Content Workshop'''<br /> **Nov. 19-20, 2005, CSHL<br /> ** Attending<br /> *** From cBio: Mark, Nigam, Suzi, Chris, John, Michael, George, Monte, Erik (not Barry)<br /> *** Jonathan Bard, XSPAN<br /> *** Thomas Bittner, Lou Goldberg, Fabian Neuhaus, NCOR<br /> *** Judy Blake, MGD<br /> *** Mike Cherry, Jane Lomax, GO<br /> *** Rex Chisolm, Pascale Gaudet, NuGene project<br /> *** Rachel Drysdale, FlyBase<br /> *** Akhilesh Pandey, OMIM<br /> *** Anne Kwitek, RGD<br /> *** Yves Lussier, SNOMED<br /> ** [[Media:PhenoAgenda.doc]]<br /> <br /> *'''Stanford/Mayo/Berkeley Meetings'''<br /> **Nov. 21, 10am-3pm, Stanford; Nov. 22, 10am-3pm, Berkeley<br /> ** Attending<br /> *** From Stanford: Mark, Daniel, Archana, Lynn, Nigam<br /> *** From Berkeley: Suzi, Chris, Sima, Shu, Nomi<br /> *** From Mayo: Deepak, Harold, Jim<br /> ** [[Draft Agenda, Mayo/Berkeley Visit, Monday, Nov 21, 2005]]<br /> <br /> *'''Forbes Dewey Meeting'''<br /> **Late October, MIT<br /> **Michael Ashburner, chair<br /> **Goal to see if anonymous foundation would pay for ontology content unification, standards, collaboration, etc.<br /> <br /> *'''Genome Informatics Meeting'''<br /> **Oct. 28-Nov. 1, CSHL<br /> **Suzi will gave presentation on cBio.<br /> **Birds of a feather sessions, one on ontology.<br /> <br /> *'''Workshop on Bio-Ontologies'''<br /> **October 28, 2005, Buffalo, NY<br /> **[http://ontology.buffalo.edu/05/bio-ontologies.pdf http://ontology.buffalo.edu/05/bio-ontologies.pdf]<br /> **Presenting: Suzi, Frank Hartel, Sumi Yoshikawa, Olivier Bodenreider, David Hill<br /> **Training session on making ontologies better<br /> <br /> *'''1st International Annual Conference, Brazilian Association for Bioinformatics and Computational Biology, Caxambu, Brazil'''<br /> **October, 2006<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''Applied Biosystems Inc., Science Meeting, Asilomar'''<br /> **September 2005<br /> **Michael Ashburner, Keynote.<br /> <br /> *'''MGED8, Bergen'''<br /> **September, 2005<br /> **Michael Ashburner, Keynote</div>

Sima