Difference between revisions of "Infectious Disease Ontology"

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Please subscribe to the Infectious Disease Ontology email list.  Anyone can subscribe, and anyone can email the list.  We plan to use the email list to discuss the addition of new terms and proposed changes to the current ontology.  To subscribe, visit https://lists.duke.edu/sympa/.  To email the list, write to ido@duke.edu.
 
Please subscribe to the Infectious Disease Ontology email list.  Anyone can subscribe, and anyone can email the list.  We plan to use the email list to discuss the addition of new terms and proposed changes to the current ontology.  To subscribe, visit https://lists.duke.edu/sympa/.  To email the list, write to ido@duke.edu.
  
== Infectious Disease Ontology Kick-off Meeting ==
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== Bare Beginnings and Infectious Disease Ontology ==
  
The upcoming Infectious Disease Ontology Workshop (see link below under "Meetings") is intended to be both a training workshop for participants and a forum through which we can establish a community for development, maintenance, and use of the Infectious Disease Ontology (IDO).  The current agenda for the workshop can be viewed [http://meetings.cshl.edu/courses/Workshop%20Curriculum.html here].
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At the recent Infectious Disease Ontology Workshop (see below), we began preliminary work on a draft infectious disease ontology.  OBO edit and Protege OWL versions of the ontology are available for download.  Please send comments and suggestions to ido@duke.edu.
 
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In preparation for the workshop, we have prepared a draft infectious disease ontology and hope that workshop attendees will take time to comment on the ontology in advance of the workshop using the discussion page of this wiki.  The ontology can be viewed here in pdf:  [[Image:IDO Draft.pdf]].  OBO edit and Protege OWL versions of the ontology are also available:
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* http://www.duke.edu/~lgcowell/IDO_Workshop_Files/IDO.9.19.07.owl
 
* http://www.duke.edu/~lgcowell/IDO_Workshop_Files/IDO.9.19.07.owl
 
* http://www.duke.edu/~lgcowell/IDO_Workshop_Files/IDO.9.19.07.pprj
 
* http://www.duke.edu/~lgcowell/IDO_Workshop_Files/IDO.9.19.07.pprj
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Accessible data to test the ontology, existing ontologies of related interest can be found here: [[Toolbox]]
 
Accessible data to test the ontology, existing ontologies of related interest can be found here: [[Toolbox]]
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== Infectious Disease Ontology Kick-off Workshop (September 19 - 20, 2007) and Meeting (September 21, 2007) ==
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 +
The Infectious Disease Ontology Workshop (see link below under "Past Meetings") was intended to be both a training workshop for participants and a forum through which to establish a community for development, maintenance, and use of the Infectious Disease Ontology (IDO).
  
 
== Workshop Slides ==
 
== Workshop Slides ==
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September 19, 2007
 
* Morning Session 1 (Cowell): http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Introduction_to_the_Human_Immune_System.ppt
 
* Morning Session 1 (Cowell): http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Introduction_to_the_Human_Immune_System.ppt
 
* Morning Session 2 (Cowell): http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Introduction_to_Microbial_Pathogenesis.ppt
 
* Morning Session 2 (Cowell): http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Introduction_to_Microbial_Pathogenesis.ppt
 
* Afternoon and Evening Sessions (Smith): http://ontology.buffalo.edu/bio/IDO/
 
* Afternoon and Evening Sessions (Smith): http://ontology.buffalo.edu/bio/IDO/
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== Meeting Slides ==
  
 
== Recommended Background Reading ==
 
== Recommended Background Reading ==
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* For an introduction to microbial pathogenisis, see http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Pathogenicity_of_Micro-Organisms.pdf
 
* For an introduction to microbial pathogenisis, see http://www.duke.edu/~lgcowell/IDO_Workshop_Files/Pathogenicity_of_Micro-Organisms.pdf
  
== Downloads ==
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== Software Downloads ==
 
* Download the OBO-Edit ontology editor: http://oboedit.org/
 
* Download the OBO-Edit ontology editor: http://oboedit.org/
 
* Download the Protege OWL ontology editor: http://protege.stanford.edu/download/download.html  
 
* Download the Protege OWL ontology editor: http://protege.stanford.edu/download/download.html  
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* The Protege developers have created a short, helpful guide to installing Pellet and making sure that Pellet is running in conjunction with Protege OWL: http://protege.stanford.edu/shortcourse/protege/200703/prepare.html  
 
* The Protege developers have created a short, helpful guide to installing Pellet and making sure that Pellet is running in conjunction with Protege OWL: http://protege.stanford.edu/shortcourse/protege/200703/prepare.html  
  
== Meetings ==
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== Past Meetings ==
 
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September 19-20, 2007
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* [http://meetings.cshl.edu/courses/c-ontol07.shtml Training Workshop on Infectious Disease Ontology]
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September 21, 2007
 
September 21, 2007
 
* [http://meetings.cshl.edu/courses/m-ontol07.html Infectious Disease: A Challenge for Biomedical Informatics]
 
* [http://meetings.cshl.edu/courses/m-ontol07.html Infectious Disease: A Challenge for Biomedical Informatics]
  
== Past Meetings ==
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September 19-20, 2007
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* [http://meetings.cshl.edu/courses/c-ontol07.shtml Training Workshop on Infectious Disease Ontology]
  
 
November 6-7, 2006
 
November 6-7, 2006
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* [http://obofoundry.org The OBO Foundry]
 
* [http://obofoundry.org The OBO Foundry]
 
* [http://diseaseontology.sourceforge.net/ The Disease Ontology]
 
* [http://diseaseontology.sourceforge.net/ The Disease Ontology]
 
 
* [ftp://ftp.tigr.org/pub/data/gemina/gemina_disease_02-21-07.obo.gz TIGR's Gemina Project Infectious Disease Ontology]
 
* [ftp://ftp.tigr.org/pub/data/gemina/gemina_disease_02-21-07.obo.gz TIGR's Gemina Project Infectious Disease Ontology]
 
* [ftp://ftp.tigr.org/pub/data/gemina/ TIGR's Gemina Project Infectious Disease Ontology Data]
 
* [ftp://ftp.tigr.org/pub/data/gemina/ TIGR's Gemina Project Infectious Disease Ontology Data]

Revision as of 16:45, 21 September 2007

Contents

New Email List

Please subscribe to the Infectious Disease Ontology email list. Anyone can subscribe, and anyone can email the list. We plan to use the email list to discuss the addition of new terms and proposed changes to the current ontology. To subscribe, visit https://lists.duke.edu/sympa/. To email the list, write to ido@duke.edu.

Bare Beginnings and Infectious Disease Ontology

At the recent Infectious Disease Ontology Workshop (see below), we began preliminary work on a draft infectious disease ontology. OBO edit and Protege OWL versions of the ontology are available for download. Please send comments and suggestions to ido@duke.edu.

Accessible data to test the ontology, existing ontologies of related interest can be found here: Toolbox

Infectious Disease Ontology Kick-off Workshop (September 19 - 20, 2007) and Meeting (September 21, 2007)

The Infectious Disease Ontology Workshop (see link below under "Past Meetings") was intended to be both a training workshop for participants and a forum through which to establish a community for development, maintenance, and use of the Infectious Disease Ontology (IDO).

Workshop Slides

September 19, 2007

Meeting Slides

Recommended Background Reading

Software Downloads

Past Meetings

September 21, 2007

September 19-20, 2007

November 6-7, 2006

Links

Personal tools
Namespaces

Variants
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