Past Events

To see current events, click here.

July 30, 2012 - August 3, 2012
Durham, NC

A summer course on anatomy ontologies is being offered for the first time through the NESCent Academy and the Phenotype Ontology Research Coordination Network.  The intended audience is postgraduate researchers in evolutionary biology and informatics – including students, postdocs and faculty – who are relative newcomers to ontologies.  It will be held from 30-Jul to 3-Aug  2012 in Durham, NC.  Spread the word, and if you are interested be sure to apply before the deadline of 6-Apr.  [Full disclosure: a number of long-time friends of Phenoscape are among the instructors].

More details at: https://academy.nescent.org/wiki/Anatomy_ontologies

June 3, 2012 - June 7, 2012
San Francisco, CA

Semantic Tech & Business Conference submission deadline closes January 16. For more information and to submit your presentation proposal, click here: http://ow.ly/8jKVK

Conference registration is also open. Register by February 17 and save with substantial early bird discounts. NCBO users and friends should use the discount code of "BMIR15" to receive 15% off the registration fees of Gold Passports.

 

April 24, 2012 - April 26, 2012
Baltimore, MD

This event will provide an opportunity for those interested in ontology-related projects in the field of clinical and translational science to review what has been achieved thus far and to consider strategies for enhanced coordination in the future.

The Tutorial will provide an introduction to ontology methods and technology for students and researchers.

For further information please see:
http://www.bioontology.org/wiki/index.php/Clinical_and_Translational_Sci...

March 26, 2012 - March 27, 2012
Stanford University

The National Center for Biomedical Ontology will hold a Hackathon in its series of Dissemination and Outreach events.

Venue: Stanford University

Date: March 26-27, 2012

Organization: Trish Whetzel (NCBO / Stanford University)

Registration: Early Registration is $25 through March 5, 2012. Spots are limited, so register now

This NCBO Hackathon will consist of two days of intensive hands-on sessions to facilitate the development of applications using NCBO Web services. We will devote extensive time to your software development project and will have presentations covering a range of topics from high-level application design to low-level coding. You will be able to:

  • Brainstorm ideas for applications
  • Discuss coding issues, performance tuning, and future development plans
  • Learn about the suite of NCBO Web services and how they are (and have been!) used in applications. Examples include access to ontologies, search, mappings, term proposals, text annotation, and biomedical resource search (the “Resource Index”)
  • Hear about the design of our RDF triple store and learn how to access the triple-store directly from your application using the SPARQL query language
March 15, 2012
Stanford University, CA, USA

Join us at Stanford University on March 15 for a half-day workshop on developing ontologies and their use in biomedical research. The session will include presentations from Drs. Barry Smith, Trish Whetzel, and Nigam Shah.

For more details, see: http://www.bioontology.org/wiki/index.php/Introduction_to_Bio-Ontologies...

October 28, 2011
Glasgow, Scotland, UK - in conjunction with CIKM 2011

Workshop Theme and Topics
Managing Interoperability and Complexity in Health Systems, MIXHS’11, aims to be a forum focusing on the latest advances in bio-medical and e-health knowledge and information management research. The workshop will provide an opportunity for sharing practical experiences and best practices in e-health information infrastructure development and management. It will gather experts, researchers, system developers, practitioners and policymakers designing and implementing solutions for managing clinical data and integrating current and future electronic-health systems infrastructures.

Issues of biomedical data-mining in large heterogeneous clinical data-sets, information retrieval and extraction in multiple medical repositories, the management of complexity and the coherent update of knowledge in medicine, clinical standards interoperability in distributed health systems and the patient Electronic Health Record (EHR) are now becoming critical to implementing enterprise and nationwide health systems.Topics of interest will include knowledge management activities seeking to address these issues by: (i) using clinical data mining, information extraction and retrieval (ii) standardization of clinical classification (i.e. International Classification of Diseases, ICD), large scale biomedical terminologies and ontologies development (Systematized Nomenclature of Medicine Clinical Terms, SNOMED CT), (iii) the standardization of clinical information transfer formats (Health Level 7, HL7) and (iv) structuring of clinical documents (Clinical Document Architecture, CDA) and the electronic health records (EHR).

Topic of Interest include but are not limited to:

  • Bio-medical Data-Mining, Information retrieval and extraction and NLP on biomedical text
  • Inference and statistical Models of diseases & Multi-morbidity
  • Clinical Information Retrieval, Management and Normalization
  • Medical Knowledge Representation and Reasoning, Expert and Clinical Decision Support Systems
  • Interoperability in Distributed healthcare Systems
  • Clinical Information Standards (e.g. HL7) Clinical Terminologies, Classifications (e.g. ICD 10) and biomedical ontologies (e.g. SNOMED - CT)
  • Hospital Enterprise Information Management Systems, Electronic Health Record, (EHR), Clinical Document Architecture
     

Submission
All the accepted papers will be included in the workshop proceedings and published by ACM. Selected excellent papers will be invited to journal publication.We are welcome submissions in the following formats:

  • Full research papers (8 pages, ACM)
  • Short papers for work in progress/late breaking results (4 pages, ACM)

All papers must be submitted in an electronic format which conforms to the ACM proceedings style and submitted as PDF files. Please use the ACM templates (the "Option 2" style).

Workshop Schedule/Important Dates

  • Individual Workshop Papers Due: June 29, 2011
  • Notification of Acceptance: July 29, 2011
  • Camera Ready: August 12, 2011 (hard deadline for publication)
  • Submission to Journal Special Issue: 1st October 2011
  • Notification to Journal authors: 15 December 2011
     

Programme Chairs

  • Matt-Mouley Bouamrane, College of Medical, Veterinary and Life Sciences, University of Glasgow, Scotland, U.K. email: Matt-Mouley.Bouamrane at glasgow.ac.uk
  • Cui Tao, Division of Biomedical Statistics and Informatics, College of Medicine, Mayo Clinic, Rochester, Minnesota, U.S.A, Tao.Cui at mayo.edu

International Program Committee (Preliminary)

  • Mariano Luis Alcañiz Raya, Technical University of Valencia, Spain
  • Alberto Anguita Sánchez, Universidad Politécnica de Madrid, Spain
  • Gordon Baxter, University of St-Andrews, Scotland, U.K
  • Luis Carriço University of Lisbon, Portugal
  • Robert Freimuth Mayo Clinic, USA
  • Simon Harper University of Manchester, U.K
  • Lucy Hederman, University of Dublin, Trinity College, Ireland
  • Guoqian Jiang, Mayo Clinic, U.S.A
  • Hongfang Liu, Mayo Clinic, U.S.A
  • Saturnino Luz, University of Dublin, Trinity College, U.K.
  • Masood Masoodian, University of Waikato, New Zealand
  • Frances Mair, University of Glasgow, U.K.
  • Patrick Olivier, University of Newcastle, U.K.
  • Craig Parker, Intermountain Health Care, U.S.A
  • Jyotishman Pathak, Mayo Clinic, U.S.A.
  • Federica Paganelli, Dept. of Electronics and Telecommunications, Italy
  • Thomas Ploetz, University of Newcastle, U.K.
  • Rafael Richards, John Hopkins, University, U.S.A.
  • Wilton van Klei, Utrecht University Medical Center, The Netherlands
  • Kevin Swingler, University of Stirling, Scotland, U.K
  • Fusheng Wang, Emory University, U.S.A.
  • Yeliz Yesilada, University of Manchester, U.K
  • Jim Zheng, Medical University of South Carolina, U.S.A.
For further details please click here.
October 22, 2011 - October 23, 2011
Vancouver, BC, Canada
Training Courses in Web Publishing - Scientific Data and Services in Vancouver, BC, Canada.
 
Registration                                   Workshop
Until October 21st, 2011              October 22nd-23rd, 2011 
 
"The Semantic Web is emerging as a new and more powerful standard for data and knowledge representation compared to the traditional Web. In this very unique, hands-on workshop you will learn how to use the Semantic Automated Discovery and Integration (SADI) framework to publish your data and analytical tools on the Semantic Web to make them easily accessible, and easier to integrate with other data and tools. Space is limited: don't get left behind in the Semantic paradigm shift! Register today at http://sadiframework.org/training/WS2/index.html."
 
The cost per participant is:
- Regular Registration (375 CAN$)    
- Student Registration (325 CAN$)
- On site Registration (500 CAN$)

 

July 26, 2011 - July 30, 2011
Buffalo, NY

The ICBO series was initiated in to provide an overarching forum with the goal of bringing together representatives of all major communities involved in the development and application of ontologies in biomedicine and related areas.

For further details please click here.
July 17, 2011 - July 19, 2011
Vienna, Austria
The 19th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2011) will be held jointly with the 10th  Annual European Conference on Computational Biology (ECCB). The conference features multiple parallel tracks of scientific talks and presentations, hundreds of posters, and internationally renowned keynote presenters including ISCB's annual Overton Prize and Sr. Scientist Award winners. The pre-conference meetings will start on the 15th.For further details please click here.
 
 
July 17, 2011 - July 23, 2011
Tuscany, Italy
The first Summer Institute in Applied Ontology, organized by the International Association for Applied Ontology (www.iaoa.org), in cooperation with the Vespucci Initiative (www.vespucci.org), will focus on the topic of Process Ontology and its applications to the analysis of processes in the human environment, in engineering, and in business.
For further details please click here.
 
June 29, 2011
Emory University in Atlanta, GA

Barry Smith will present a tutorial on "How to build a Biomedical Ontology" on June 29 at Emory University in Atlanta, GA. 

The tutorial consists of two parts; a survey of ontology principles and applications in clinical and translational research and a case study of the new ontology for newborn screening that is being developed at Emory.

This tutorial is part of the series of dissemination events sponsored
by the National Center for Biomedical Ontology. For further details, see http://ontology.buffalo.edu/11/Tutorial_Atlanta_2011.htm

 

June 26, 2011
Co-located with K-CAP 2011 - Banff, Alberta, Canada
This workshop will provide a forum to discuss difficult problems in representing complex knowledge needed to support deep reasoning, question answering, explanation and justification systems.  The goals of the workshop are: (1) to create a comprehensive set of knowledge representation (KR) challenge problems suitable for a recurring competition, and (2) begin to develop KR techniques to meet those challenges.  A set of difficult to represent sentences from a biology textbook are included as an initial set of KR challenges. Cash prizes will be awarded for the most creative and comprehensive solutions to the selected challenges.

The workshop will be a highly interactive event with brief presentations of problems and solutions followed by group discussion. To submit a paper to the workshops, the participants should select a subset of the challenge sentences and present approaches for representing them along with an approach to use that representation in a problem solving task (question answering or decision support).

Participants are free to add to the list of challenge sentences, for example, from other chapters of the textbook, or within the spirit of their own projects and experience but should base their suggestions on concrete examples, if possible, from real applications.

For more details, please click here.

May 29, 2011 - June 2, 2011
Heraklion, Greece
The mission of the Extended Semantic Web Conference is to bring together researchers and practitioners dealing with different aspects of semantics on the Web. It is a premier international event on semantic web research and technologies, with a particular focus on collaborating with other communities and research areas, in which web semantics play an important role.
For further details please click here.
 
 
May 19, 2011 - May 20, 2011
Fredericton, New Brunswick
This series of training courses is mandated to train service providers in the use of modern semantic approaches to publishing informatics resources on the Web using the semantic web services paradigm.The first Web Publishing of Scientific Data and Services Training Course will be held in Fredericton, New Brunswick on May 19-20th, 2011.

Semantic Web Services have rich descriptions of functional requirements that facilitate service interoperability and make it easier for users to discover and access relevant services in real time.

The course provides both theory and practical training in the semantic technologies that underpin the development of semantic web services.The training course contains the following subjects:

  • Semantic Web
  • Web Services
  • SADI Semantic Web Services

Learning Objectives

Service providers will learn to write semantic web services describing the functionality of their services. This requires modeling of services using the ontology web language and registering the services in the project registry. End Users will learn how to use SHARE and other service workflow orchestration clients to execute queries across the registry and evaluate the results.

At the end of the training, attendees will know how to:

  • Publish their data and algorithms on the Web in a manner that is easy for others to find and access using state of the art toolkits.
  • Ensure their data and tools integrate well with other resources on the Web.
  • Enhance query access and service discoverability for target end-user communities.

Target Audience

This training course is primarily of interest to providers of bioinformatic resources seeking to extend the utility and usability of thier data and services. Researchers interested in learning state of the art semantic technologies and their deployment to facilitate web scale interoperability are strongly encouraged to attend. Priority will be given to students and professionals with working knowledge of Perl and/or Java.

Profile of Target Audience:

  • Web Developers and Bioinformatics researchers seeking to ensure the adoption of their technologies in the knowledge discovery;
  • Workflow system developers coordinating computational and data resources across the web using semantics;
  • Industry pioneers in Workflow, Grid and Semantic technologies;
  • Researchers involved in Web-based Knowledge Discovery in Bioinformatics.
For further details please click here.
 
 

March 7, 2011 - March 9, 2011
San Francisco, CA
The Summit on Translational Bioinformatics aims to highlight the trans-disciplinary nature of this now-burgeoning research field and provide a unique opportunity to bring together the finest minds in translational bioinformatics from the academia, industry, government and non-profit sectors. As in previous years, the top papers will be invited to publish in an open access journal.
For further details click here.
 
 
 
February 23, 2011 - February 25, 2011
Cambridge, Boston, MA
CSHALS is the premier annual event focused on the use of semantic technologies in the pharmaceutical industry, including hospitals/healthcare institutions and academic research labs. CSHALS is intended for anyone already participating in this groundbreaking field, and a pre-conference tutorial is offered to help interested researchers come up to speed on the practical approaches of applying intelligent information technologies in pharmaceutical R&D.
For further details please click here.
 
 
February 23, 2011 - February 25, 2011
San Francisco, CA
Scientific conference for cutting-edge research, trends and analysis. The future holds great promise for molecular medicine, however the demand for results today is ever mounting, from both patients and businesses alike.  The Molecular Med Tri-Conference is the place to find the tools to turn ‘someday’ into ‘now’.
For further details please click here.
 
January 3, 2011 - January 7, 2011
Big Island, Hawaii
The Pacific Symposium on Biocomputing (PSB) 2011 is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. Papers and presentations are rigorously peer reviewed and are published in an archival proceedings volume. Tutorials will be offered prior to the start of the conference.
For further details please click here.
 
December 10, 2010
Berlin, Germany
SWAT4LS is a workshop that provides a venue to present and discuss benefits and limits of the adoption of Semantic Web technologies and tools in biomedical informatics and computational biology.
The third edition of Semantic Web Applications and Tools for Life Sciences (SWAT4LS)  2010 will be held in Berlin on  December 10th, 2010.
For more information:
Web site: http://www.swat4ls.org/2010/

 

December 9, 2010 - December 11, 2010
Aspen/Snowmass, Colorado
The 8th Annual Rocky Mountain Bioinformatics Conference, a meeting of the International Society for Computational Biology (ISCB) has an international program with a spotlight on regional development in the computational biosciences. The presenters of the Rocky conference are scientists representing a broad spectrum of universities, industrial enterprises, government laboratories, and medical libraries from around the world. The meeting is a chance to get to know your colleagues near and far, seek collaborative opportunities, and find synergies that can drive the field forward.
For further details please click here.
 
November 29, 2010 - December 1, 2010
Naples, Italy
NETTAB workshops are aimed at presenting and discussing emerging ICT technologies whose adoption in support of biology could be of particular interest. NETTAB 2010 will focus on biological wikis.
It is now clear that wiki systems offer a variety of advantages for the management of biological data and information. Some of the specific aims of wikis for biology (bio-wikis) include:
Collaborative development and sharing of knowledge
Collaborative annotation of database contents
Collaborative creation of database contents
For further details please click here.
 
November 13, 2010 - November 17, 2010
Washington, DC
The AMIA Annual Symposium is the world’s most comprehensive annual meeting on biomedical and health informatics. The Annual Symposium provides a wide range of formats for education and discussion. Papers and posters present peer-reviewed state-of-the-art scientific and technical work. Demonstrations and Partnerships in Innovation allow for comprehensive presentation of advanced systems, including new developments and innovative uses of commercial systems. Panels, keynote presentations, tutorials, and workshops bring together thought leaders for in-depth and active audience exchange about critical issues of the day.
For further details please click here.

 

 

November 13, 2010
Washington, DC
The AMIA 2010 preconference tutorial program runs on Saturday and Sunday, Nov. 13-14, and is designed to provide the opportunity to learn about a wide range of topics in biomedical and health informatics, including Mark Musen’s and Nigam Shah’s tutorial "Ontology-oriented resources from the National Center for Biomedical Ontology" scheduled on Saturday, November 13, 2010, 1:00 pm to 4:30 pm.  AMIA 2010 attendees are invited to attend this tutorial because the National Center for Biomedical Ontology offers an extensive range of software services for accessing ontologies, generating value sets and lexicons, annotating data, and performing information retrieval that form key elements of application systems in biomedical informatics.  For further details please click here.
 
For info on additional talks about NCBO technology please click here.
 
 
November 11, 2010 - November 12, 2010
Washington, DC
The annual ACM IHI conference is the premier international forum concerned with the application of computer and information science principles and information and communication technology to problems in healthcare, public health, the delivery of healthcare services and consumer health as well as the related social and ethical issues.
The IHI 2010 organizers invite demo and paper contributions from researchers, practitioners, developers, and users to explore and disseminate cutting-edge ideas and results, and to exchange techniques, tools, and experiences.
For further details please click here.
 
November 7, 2010 - November 11, 2010
Shanghai, China
ISWC is the major international forum where the latest research results and technical innovations on all aspects of the Semantic Web are presented.
For further details please click here.
 
November 7, 2010
Shanghai, China

The 1st International Workshop on Semantic Repositories for the Web (SERES 2010) will be held at the 9th International Semantic Web Conference in Shanghai, China on November 7, 2010.

Ontologies and Linked Data vocabularies are being actively developed and used by numerous applications. Several domains are making their vocabularies available for others to reuse. In addition, good practices when developing ontologies are often followed, particularly for producing reusable modules. The Semantic Web is a modular and highly federated environment of reusable knowledge sources; these provide the meaning so that SW applications change our experience of the web. Within this context, the need for repositories delivering the added value that makes the SW a concrete step beyond our current experience of the web is palpable. SERES addresses issues around semantic repositories within the context of the SW.  

Natasha Noy and Peter Yim will be the keynote speakers.

For further details please click here.

November 7, 2010
Shanghai, China

The 2nd International Workshop on the Role of Semantic Web in Provenance Management (SWPM 2010) will be held at the 9th International Semantic Web Conference in Shanghai, China on November 7, 2010.

The growing eScience infrastructure is enabling scientists to generate scientific data on an industrial scale. Similarly, using the Web as the platform, the Linked Open Data (LOD) initiative has created a vast amount of information that can be leveraged by Semantic Web application in a variety of real world scenarios. The importance of managing various forms of metadata has long been recognized as critical in the Semantic Web. In this workshop we focus specifically on metadata that describes the origins of the data. The term provenance from the French word “provenir”, meaning “to come from", describes the lineage or origins of a data entity. Provenance metadata is essential to correctly interpret the results of a process execution, to validate data processing tools, to verify the quality of data, and to associate measures of trust to the data. The primary objective of this workshop is two-fold, (1) to explore the role of Semantic Web in addressing some of the critical challenges facing provenance management and (2) the role of provenance in real world Semantic Web applications.

Deborah McGuinness, RPI will be a keynote speaker.

For further details please click here.

November 1, 2010 - November 4, 2010
Vancouver, BC, Canada
Life Sciences applications typically involve large volumes of data of various kinds and a multiplicity of software tools for managing, analysing and interpreting them. There are many challenging problems in the processing of life sciences data that require effective support by novel theories, methods and technologies. Conceptual modelling is the key for developing high-performance information systems that put these theories, methods and technologies into practice. The fast growing interest in life sciences applications calls for special attention on resource integration and collaborative efforts in information systems development.
For further details please click here.
 
October 25, 2010 - October 26, 2010
European Bioinformatics Institute (EBI) in Hinxton, Cambridgeshire, UK
SMBM 2010 aims to bring together researchers from text and data mining in biomedicine, medical, bio- and chemoinformatics, and researchers from biomedical ontology design and engineering. SMBM 2010 is the follow-up event of SMBM 2005 (EBI, U.K.), SMBM 2006 (University of Jena, Germany) and SMBM 2008 (University of Turku, Finland).
For further details please click here.
 
October 23, 2010
Buffalo, NY

The University at Buffalo, the National Center for Ontological Research (NCOR) and the National Center for Biomedical Ontology (NCBO) are sponsoring a one-day introductory training event on ontology building.

The primary audience for this event will consist of persons with an interest in ontology who have no background in the use of the computer languages and software tools employed in ontology construction, editing and use. All sessions will be highly interactive.

For further details please click here.

October 12, 2010 - October 15, 2010
Perth, Australia
The 23rd IEEE International Symposium on Computer-Based Medical Systems (CBMS 2010) is intended to provide an international forum for discussing the latest results in the field of computational medicine. The scientific program of CBMS 2010 will consist of invited keynote talks given by leading scientists in the field, and regular and special track sessions that cover a broad array of issues which relate computing to medicine.
For further details please click here.
 
October 11, 2010 - October 14, 2010
Tokyo, Japan
Biocuration 2010, the Conference of International Society for Biocuration (ISB) and the 4th International Biocuration Conference, will provide a forum for curators and developers of biological databases to discuss their work, promote collaborations, and foster a sense of community in this active and growing area of research.
For further details please click here.
 
October 11, 2010 - October 15, 2010
Lisbon, Portugal
The 17th International Conference on Knowledge Engineering and Knowledge Management is concerned with all aspects of eliciting, acquiring, modeling and managing knowledge, and its role in the construction of knowledge-intensive systems and services for the semantic web, knowledge management, e-business, natural language processing, intelligent information integration, etc. The focus of the 17th edition of EKAW will be on Knowledge Management and Engineering by the Masses.
For further details please click here.
 
September 26, 2010
Ghent, Belgium. Co-located with ECCB10

The workshop presents the state of the art in extraction and reuse of genotype-phenotype information. Annotation of mutations with their impact on phenotypic expression is crucial to understanding genetic mechanisms involved in phenotypic processes and ultimately in complex
diseases. Managing this knowledge is key to generating novel hypotheses. Despite the existence of literature and databases describing impacts of mutations, association studies fail to deliver linkage to phenotypes which is the most important contemporary research interest. Extraction of such information from scientific literature is a promising research field and existing solutions are ready to be deployed as services and as semantic web services.

For further details please click here.

September 18, 2010 - September 19, 2010
Amsterdam, the Netherlands
SMWCon brings together developers, users, and organizations from the Semantic MediaWiki community around the world. As with the previous SMWCons, SMWCon Fall 2010 will include presentations and discussions about current applications and the future development of Semantic MediaWiki and its extensions and applications. Participants are invited to present their own work and to discuss experiences and ideas. While the conference will have scheduled presentations, each will encourage free discussion and a rapid exchange of ideas. Suggestions and proposals for schedule items are welcome.
For further details please click here.
 
September 13, 2010 - September 15, 2010
Washington, DC

Learn about the critical importance of biomedical informatics and information technology in facilitating multidisciplinary collaboration across institutional barriers and advancing biomedical research. Discover caBIG® capabilities that can support your work and share lessons learned with others who have developed and applied caBIG® technology to advance basic and clinical research. Engage in unparalleled opportunities for networking and information exchange with leaders in biomedical informatics. Investigate innovative tools and explore the caBIG® services-oriented architecture during hands-on sessions and demonstrations. 

For further details please click here.
September 9, 2010 - September 10, 2010
Mannheim, Germany. Co-located with GMDS2010.

The second workshop of the OBML community aims at gathering people that work in the main areas of OBML for an exchange of ideas, the presentation of recent results and the stimulation of cooperation. Areas of interest include, but are not limited to, the following topics:
- ontologies in biology, medicine, and clinical research
- process ontologies in systems biology and medicine
- ontologies for describing clinical trials and medical phenotypes
- the role of ontologies in knowledge representation
- methods and tools for the development and management of ontologies

For further details please click here.

July 9, 2010 - July 10, 2010
Boston, MA

Recognizing the increasing synergy in medical and biological ontology research and development, biomedical Knowledge Representation Working Group (KR-WG) of the American Medical Informatics Association (AMIA) has chosen the Bio-Ontologies SIG as the venue of the KR-WG's biannual knowledge representation in medicine meetings (KR-MED, www.kr-med.org). Bio-Ontologies 2010 will serve as host to KR-MED 2010 in the biannual meeting series. In order to attend the biannual KR-MED meeting, please register for the Bio-Ontology SIG.

June 26, 2010 - June 27, 2010
Stanford University

 

NCBO hosts the W3C workshop on Next Steps for RDF

The Resource Description Framework (RDF), including the general concepts, its semantics, and an XML Serialization (RDF/XML), have been published in 2004. Since then, RDF has become the core architectural block of the Semantic Web, with a significant deployment in terms of tools and applications.

As a result of the R&D activities and the publication of newer standards like SPARQLOWLPOWDER, or SKOS, but also due to the large scale deployment and applications, a number of issues regarding RDF came to the fore. Some of those are related to features that are not present in the current version of RDF but which became necessary in practice (eg, the concept of “Named Graphs”). Others result from the difficulties caused by the design decisions taken in the course of defining the 2004 version of RDF (eg, restrictions whereby literals cannot appear as subjects). Definition of newer standards have also revealed difficulties when applying the semantics of RDF (eg, the exact semantics of blank nodes for RIF and OWL, or the missing connection between URI-s and the RDF resources named by those URI-s for POWDER). New serializations formats (eg, Turtle) have gained a significant support by the community, while the complications in RDF/XML syntax have created some difficulties in practice as well as in the acceptance of RDF by a larger Web community. Finally, at present there is no standard programming API to manage RDF data; the need may arise to define such a standard either in a general, programming language independent way or for some of the important languages (Javascript/ECMAscript, Java, Python,…)

It is therefore time to consider whether a revision of the 2004 version of RDF is necessary or whether the community can continue developing with the current version.

Workshop Goals

The goal of the workshop is to gather feedback from the Web community on whether and, if yes, in which direction RDF should evolve. One of the main issues the Workshop should help deciding is whether it is timely for W3C to start a new RDF Working Group to define and standardize a next version of RDF.

While a new version of RDF may include changes in terms of features, semantics, and serialization syntax(es), backward compatibility is of a paramount importance. Indeed, RDF has been deployed by tools and applications, and the last few years have seen a significant uptake of Semantic Web technologies and publication of billions of triples stemming from public databases (see, eg, the Linked Open Data community). It would be, therefore, detrimental to this evolution if RDF was seen as unstable and if the validity of current application would be jeopardized by a future evolution. As a consequence, with any changes of RDF, backward compatibility requirements should be formalized, along the lines of, say:

  • any valid RDF graphs (in terms of the RDF 2004 version) should stay valid in terms of a new version of RDF; and
  • any RDFS entailment drawn on RDF graphs using the 2004 semantics should be valid entailement in terms of a new version of RDF

The main outcome of the workshop will be the publication of a workshop proceedings and, in case there is a consensus on moving forward, a draft for a charter for a newly created RDF Working Group.

June 21, 2010 - June 22, 2010
San Francisco, CA

Co-located with 2010 Semantic Technology Conference (SemTech 2010)
http://www.semantic-conference.com/

Close to W3C Workshop RDF Next Steps
http://www.w3.org/2009/12/rdf-ws/

The adoption of the W3C OWL Web Ontology Language in real-world applications continues to grow as the research and tools for OWL mature.
The new version OWL 2 -- becoming a W3C recommendation late last year --has been a positive factor in this direction. As the experience in using OWL in different applications and domains increases, the strengths and weaknesses of the language are discovered, resulting in new research and development that further extends its reach.

The OWL: Experiences and Directions (OWLED) workshop series aims at bringing users, implementors and researchers from academia and industry together to describe applications of OWL, to share experience, and to discuss extensions to the language for satisfying application requirements. The workshop will allow the OWL community to set an agenda for research and deployment in order to incorporate OWL-based technologies into new applications.

 

June 21, 2010 - June 25, 2010
San Francisco, California

For further details please click here.

June 15, 2010 - June 16, 2010
Troy, NY

The Third International Provenance and Annotation Workshop (IPAW2010) is part of International Provenance and Annotation Workshop Series (IPAW). It will further investigate the issues of data provenance, process documentation, data derivation, and data annotation.

May 30, 2010 - May 31, 2010
Heraklion, Crete, Greece

The ORES 2010 Workshop is co-located with ESWC 2010 conference in Heraklion, Crete, Greece (May, 30th - June,3rd, 2010). The Extended Semantic Web Conference (EWSC 2010) brings together researchers and practioners dealing with different aspects of semantics on the Web.

 




May 11, 2010
Toronto, Canada

MODULARITY, as studied for many years in software engineering, allows mechanisms for easy and flexible reuse, generalization, structuring, maintenance, design patterns, and comprehension. Applied to ontology engineering, modularity is central not only to reduce the complexity of understanding ontologies, but also to facilitate ontology maintenance and ontology reasoning.

Recent research on ontology modularity shows substantial progress in foundations of modularity, techniques of modularization and modular development, distributed reasoning and empirical evaluation. These results provide a foundation for further research and development.

The workshop follows a series of successful events that have been an excellent venue for practitioners and researchers to discuss latest
work and current problems, and is this time organised as a satellite workshop of FOIS 2010, as well as being co-located with several other relevant events, namely KR, AAMAS, ICAPS, NMR, and DL.

TOPICS include, but are not limited to:

- What is Modularity: Kinds of modules and their properties; modules vs. contexts; design patterns; granularity of representation;

- Logical/Foundational Studies: Conservativity; modular ontology languages (e.g., DDL, E-Connections, P-DL); reconciling
inconsistencies across modules; formal structuring of modules;heterogeneity;

- Algorithmic Approaches: distributed reasoning; modularization and module extraction; (selective) sharing and re-using, linking and
importing; hiding and privacy; evaluation of modularization approaches; complexity of reasoning; reasoners or implemented systems;

- Applications: Semantic Web; Life Sciences; Bio-Ontologies; Natural Language Processing; ontologies of space and time; Ambient
Intelligence; collaborative ontology development; etc.

IMPORTANT DATES

Paper Submission: January 29, 2010
Notification:  March 1, 2010
Camera ready: March 11, 2010
Workshop day: May 11, 2010

March 22, 2010
Stanford, CA
 
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AAAI Spring Symposium on Linked Data Meets Artificial Intelligence
March 22-24, 2010, Stanford, CA
http://www.foaf-project.org/events/linkedai

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The goal of Linked Data is to enable people to share structured data on the Web as easily as they can share documents today. The basic assumption behind Linked Data is that the value and usefulness of data increases the more it is interlinked with other data. Linked Data is simply about using the Web to create typed links between data from different sources. Today, this emerging Web of Data includes data sets as extensive and diverse as DBpedia, Geonames, US Census, EuroStat, MusicBrainz, BBC Programmes, Flickr, DBLP, PubMed, UniProt, FOAF, SIOC, OpenCyc, UMBEL, Virtual Observatories, and Yago.

The availability of this linked data creates a new opportunity for the exploitation of AI techniques that have historically played central role in knowledge representation, information extraction, information integration, and cognitive agents. The symposium is aimed at bringing together the researchers working on Linked Data and AI. Our hope is to create a new community interested in utilizing AI techniques such as ontologies, machine learning, data fusion, etc. in exploring the linked open data. Successful submissions will address at least some aspect of both areas.

 
The symposium will cover topics such as:
   * Light Weight Ontologies for Linked Data
   * Lightweight representation languages for capturing linked data
   * Lightweight ontologies to specify semantics in linked data
   * Conceptual modeling techniques for representing linked data
   * Ontology community evolution and maintenance environments for use with linked data
   * Ontology-enabled environments and tools for Linked Data
 
Semantic Publishing
   * Tools for publishing large data sources using light weight ontologies on the Web (e.g. relational databases, XMrepositories)
   * Curating policies and approaches for linked data
   * Embedding linked data with semantics into classic Web documents (e.g. GRDDL, RDFa, Microformats)
   * Licensing and provenance tracking issues in Linked Data publishing Provenance languages and tools for Linked Data
   * Business models for Linked Data publishing and consumption
 
Exploiting Linked Data
   * User interaction and usability issues surrounding linked data
   * Visualization techniques for exploring linked data
   * Evidence-weighing techniques for socially-grounded claims (FOAF, OpenID)
   * Use of machine learning algorithms for linking and identity resolution
   * Inference and techniques for answering questions using linked data
   * Exploiting rich knowledge bases in conjunction with the linked data

Linked Data Application Architectures
   * Crawling, caching and querying Linked Data on the Web; optimizations, performance
   * Linked Data browsers
   * Linked Data search engines and search interfaces
   * Building intelligent agents that exploit linked data

 
The symposium will feature contributed papers, invited talks, and panels, and will include "self-organized" sessions in the barcamp / un-conference style.

Email contact: linkedai.admin@gmail.com

Keynote: R.V. Guha (Google)

 
Submissions:

We welcome short and long papers, position statements, videos, panel, and demo proposals. Please submit your paper of 2-8 pages in PDF AAAI submission format (http://www.aaai.org/Publications/Author/author.php)
to the Linked Data and AI submission site on Easychair: https://www.easychair.org/login.cgi?conf=linkedai2010

Important Dates
   * October 2, 2009: Submissions due to organizers
   * November 6, 2009: Notification of acceptance sent by organizers
   * January 22, 2010: Accepted camera-ready copy due to AAAI

February 27, 2010
Tokyo, Japan
 
The 3rd Interdisciplinary Ontology Conference will be held on Feburary 27-28, 2010 in Tokyo, Japan, Interdiciplinary Ontology Forum in Japan
 
The increasingly important role played by ontology in addressing the data integration needs of government, science and industry has brought a growing interest in the methods, tools and resources of ontology research and applications. The goal of the Interdisciplinary Ontology Conference of the Japanese Center for Ontological Research (JCOR) is to address the need for an international forum in the ontology domain and to provide a forum for the exchange of ideas and state-of-the-art technologies among researchers from around the world in ontology and related fields.

Disciplines represented will include computer science, logic and philosophy, as well as a variety of application domains. The
conference consists of invited lectures and sessions consisted of peer reviewed papers which will be included in the on-site volume of Proceedings, which will also be distributed as a post-conference publication.

Papers may address a wide variety of issues relating to ontology and its applications. Papers should be at most 12 pages long (including figures and references) employing the Springer LNCS style.
Submission instructions along with registration and logistics information will appear at the conference website 

Interdiciplinary Ontology Forum in Japan

Important Dates:
December 5: Deadline for submission of complete paper
By January 7, 2009: Notification of acceptance
January 28: Camera-ready copy due for on-site proceedings version
February 3, 2010 - February 5, 2010
San Francisco, CA
January 4, 2010
Big Island of Hawaii

The fifteenth Pacific Symposium on Biocomputing, will be held January 4-8, 2010 at the Fairmont Orchid on the Big Island of Hawaii. PSB 2010 is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance.

December 1, 2009
Melbourne, Australia

The 5th Australasian Ontology Workshop (AOW 2009) to be held in Conjunction with the 22nd Australian Joint Conference on Artificial Intelligence (AI'09) on 1 December 2009, and the University of Melbourne, Melbourne, Australia.

http://ksg.meraka.org.za/~aow2009

AOW 2009 is the fifth in a series of workshops on ontologies held in the Australasian region.

The proceedings of the four previous workshops were published as volumes in the Conferences in Research and Practice in
Information Technology (CRPIT) series (http://crpit.com/), and this will again be the case for AOW 2009. As with the previous
workshops, we are investigating the possibility of extended versions of  selected papers appearing in a special issue of a suitable journal.

Papers must be submitted via the EasyChair system at http://www.easychair.org/conferences/?conf=aow2009

Submission information such as format etc. can be found on the CRPIT website: http://crpit.com/AuthorsSubmitting.html. The page limit is 10 pages.

This year AOW 2009 will have a best paper award, with a prize of $250(AUD) being awarded to the author(s) of the best paper.

Important Dates:
Paper submission deadline: 25 September 2009
Notification of acceptance/rejection: 23 October 2009
Camera-ready copies due: 13 November 2009
AOW 2009: 1 December 2009

October 25, 2009
Washington, DC

The 1st Workshop on Ontology Patterns (WOP2009)

provides an arena for proposing and discussing good practices, patterns, pattern-based ontologies, systems etc. The aim is to broaden the pattern community that will develop its own “language” for discussing and describing relevant problems and their solutions. The workshop will be held in conjunction with ISWC2009 on October 25th. It will be a full-day workshop consisting of three parts: papers, posters, and “pattern writing” sessions.

October 18, 2009 - October 20, 2009
Toulouse, France

The 8th Terminology and Artificial Intelligence Conference (TIA 2009), will be held November, 18-20, 2009, in Toulouse, France. The 2009 TIA Conference will focus mainly - although not exclusively - on terms and terminological systems.

September 1, 2009 - September 4, 2009
Redondo Beach, CA

The 5th Intl. Conference on Knowledge Capture (K-CAP 2009), will be held September 1-4, 2009 at the Crowne Plaza Redondo Beach & Marina Hotel, California. K-CAP 2009 will provide a forum that brings together members of disparate research communities that are interested in efficiently capturing knowledge from a variety of sources and in creating representations that can be useful for reasoning, analysis, and other forms of machine processing.

August 31, 2009 - September 4, 2009
Linz, Austria

In conjunction with DEXA 2009 20th International Conference on Database and Expert Systems Applications. Paper Submission deadlines: March 6, 2009

July 27, 2009
Moscone Center, San Francisco, CA

The First International Workshop on Bio-Design Automation (IWBDA) will bring together researchers from the synthetic biology and design automation communities. The broad focus will be on concepts, methodologies and software tools for the automated synthesis of novel biological functions. A specific focus will be on the application of computational expertise from electronic circuit design to these areas. Abstracts submissions due May 22, 2009.

July 24, 2009 - July 26, 2009
Buffalo, New York

To be maximally effective, ontologies must work well together. But as ontologies become more commonly used, the problems involved in achieving coordination in ontology development become ever more urgent. To address these problems there is a need for an overarching conference which brings together representatives of all major communities involved in the development and application of ontologies in biomedicine and related areas. ICBO is designed to meet this need. Please see their website for the Call for Papers. ICBO will be held July 24-26, 2009, in conjunction with four days of tutorials and classes in ontology to be scheduled from July 20-23, 2009. ICBO is co-sponsored by the University at Buffalo College of Arts and Sciences, the National Center for Ontological Research (NCOR), and the NBCO.

July 22, 2009
July 23, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 22, 2009
July 23, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 22, 2009
July 23, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 22, 2009
July 23, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 21, 2009 - July 23, 2009
University of Manchester, UK

DILS 2009 is the sixth in a workshop series that aims at fostering discussion, exchange, and innovation in research and development in the areas of data integration and data management for the life sciences. Paper Submission Deadlines: February 13, 2009 (abstracts); February 20, 2009 (full papers).

July 20, 2009
July 21, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 20, 2009
July 21, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 20, 2009
July 21, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 20, 2009
July 21, 2009
Buffalo, NY, USA

A two-day course organized in conjunction with the International Conference on Biomedical Ontology.

July 11, 2009 - July 17, 2009
Pasadena, California, USA
June 23, 2009 - June 26, 2009
University of Amsterdam, Netherlands

This conference will bring together researchers developing or using

Protégé

methodologies and tools. The conference provides a great opportunity to appreciate the breadth of applications of the technology, to share new developments in the field, and to find out how to leverage these developments in practice.

June 18, 2009
Online

A new membership organization dedicated to the subject of applied ontology has been established. A non-profit, open association with the purpose of promoting interdisciplinary research and international collaboration the International Association for Ontology and its Applications (IAOA) views biomedicine as a strategically important application area. To present the IAOA, which enjoys a the friendly cooperation with the Ontolog Forum, the IAOA Executive Council has organized a public Ontolog telecon for this Thursday, June 18, at 10:30 PDT, 19:30 CEST. See details here.

June 17, 2009
Online
June 3, 2009
online

Please see http://bioontology.stanford.edu/upcomingtalks for more information.

May 20, 2009 - May 21, 2009
Bethesda, Maryland

Aligned closely with the priorities of the new Administration, this year’s conference will focus on the development and widespread implementation of personal electronic health records. For full conference information, and to register, please see this page.

May 6, 2009 - May 7, 2009
Milan, Italy

In conjunction with the 11th International Conference on Enterprise Information Systems (ICEIS 2009). Regular Paper Submission Deadline: March 2, 2009.

April 29, 2009
Stata Center in Cambridge, MA

The Shared Names initiative has as its mission to assign URIs as names for publicly available biomedical information records and establish a community managed shared infrastructure for providing durable access to documentation about these names. The first workshop will take place April 29, 2009 at the Stata Center in Cambridge, MA. For more information, inclluding instructions for registering, please see the Meeting Information Site.

April 15, 2009
online

Please see link for more information.

April 6, 2009 - April 7, 2009
online

Toward Ontology-based Standards: This summit will address the intersection of two active communities, namely the technical standards world, and the community of ontology and semantic technologies. This intersection is long overdue because each has much to offer the other. Ontologies represent the best efforts of the technical community to unambiguously capture the definitions and interrelationships of concepts in a variety of domains. Standards - specifically information standards - are intended to provide unambiguous specifications of information, for the purpose of error-free access and exchange....

March 22, 2009 - March 23, 2009
Saint-Petersburg, Russia Colocated with EDBT/ICDT 2009

Conference Information. This workshop will be a forum for presenting and discussing ideas, challenges, and opportunities for data management technology in the life sciences. New and existing concepts and techniques shall be considered in the light of the rapidly increasing interest in life sciences research and the great advances in system infrastructures and available data sources.

March 18, 2009
online

Please see link for more information.

March 15, 2009 - March 17, 2009
San Francisco, CA

Hosted by: The American Medical Informatics Association in Partnership with ISCB.

March 7, 2009
Buffalo, NY, USA

The deadline for submission of papers to ICBO has been extended to March 7, 2009 (midnight EST). ICBO has received major funding support from the National Human Genome Research Institute (NIH/NHGRI). This will allow for an expanded number of student and early career fellowships at the ICBO conference. Please see their website for the Call for Papers.

March 4, 2009
online

Please see link for more information. - Talk will be rescheduled.

February 27, 2009 - March 1, 2009
Tokyo, Japan

The ontological methodology has been developed in computer science and related fields in recent years and has proven very useful in areas such as biomedical informatics, intelligence analysis, information retrieval, and natural language processing. It also serves as basis for the Semantic Web initiative and for a number of innovative experiments in text- and literature-mining and in journal publishing.

February 18, 2009
online

Please see link for more information.

February 13, 2009
online

The BioPortal User Group aims to improve bi-directional communication between the Center's developers and the user community of Bioportal.

February 4, 2009
online

Please see link for more information.

January 21, 2009
online

Please see the link for more information.

January 5, 2009
Boston, MA, USA

This workshop will be held in conjunction with the Annual Meeting of the Society for Integrative and Comparative Biology (SICB) in Boston, MA on January 5, 2009. It is cosponsored by the National Evolutionary Synthesis Center (NESCent) and the National Center for Biomedical Ontology (NCBO)

December 18, 2008 - December 19, 2008
Stanford University

For more information, please contact Benjamin Dai

December 16, 2008 - December 17, 2008
Stanford University

For more information, please contact Michael Montegut

November 28, 2008
Edinburgh, UK

Overview: The workshop is organized in sessions and open discussions. Invited speakers will present state-of-the-art, provocative lectures on the workshop's main topic, while a number of submissions will be accepted as oral presentations and posters on all workshop's topics.

November 8, 2008 - November 12, 2008
Washington, DC
October 31, 2008 - November 3, 2008
Saarbrücken, Germany

FOIS 2008 is the 5th International Conference on Formal Ontology in Information Systems.

October 26, 2008 - October 30, 2008
Karlsruhe, Germany
September 16, 2008 - September 18, 2008
University at Buffalo, NY
July 19, 2008
Toronto, Canada

This will be held as a tutorial at ISMB 2008.

June 20, 2008
Minneapolis, MN

This will be held as part of Evolution 2008.

April 12, 2008 - April 13, 2008
Buffalo, NY

2-Day Training Event

March 27, 2008 - March 28, 2008
Stanford, CA
March 27, 2008 - March 28, 2008
Newark, NJ
March 24, 2008 - March 26, 2008
Stanford, CA
March 10, 2008 - March 12, 2008
San Francisco, CA

See their brochure for more information.

February 26, 2008 - February 27, 2008
Tokyo, Japan

This event is being scheduled as part of the Inaugural Conference of JCOR: The Japanese Center for Ontological Research.

December 13, 2007 - December 14, 2007
Stanford, CA, USA
November 27, 2007 - November 28, 2007
Stanford, CA, USA
October 25, 2007 - October 28, 2007
Hayes Mansion, San Jose, California
November 30, 2006 - December 2, 2006
Clark Center, Stanford University, Stanford, CA
November 6, 2006 - November 7, 2006
Inn at the Colonnade, Baltimore, MD
September 13, 2006 - September 17, 2006
Hinxton, UK
September 8, 2006 - September 9, 2006
Seattle, WA
August 14, 2006 - August 18, 2006
Stanford University, CA

An educational seminar introducing participants to bio-ontologies, uses, and best practices. Slides are available at http://www.bioontology.org/wiki/images/3/31/CSB2006.ppt.

August 6, 2006 - August 10, 2006
Fortaleza, Brazil
July 23, 2006 - July 26, 2006
Stanford Univeristy, CA
July 17, 2006 - July 19, 2006
NIH, Bethesda, MD