Difference between revisions of "Main Page"

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(Using BioPAX)
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***[http://www.ebi.ac.uk/biomodels/ BioModels Database] - Level 2 format: Download link available on each model page.
 
***[http://www.ebi.ac.uk/biomodels/ BioModels Database] - Level 2 format: Download link available on each model page.
 
***[http://www.inoh.org/ INOH pathway database] - Level 2 format: 57 signal transduction pathways with more than 1300 interactions are available from [http://www.inoh.org/download.html#PathwayData Pathway data page].
 
***[http://www.inoh.org/ INOH pathway database] - Level 2 format: 57 signal transduction pathways with more than 1300 interactions are available from [http://www.inoh.org/download.html#PathwayData Pathway data page].
***[http://nashua.cwru.edu/PathwaysWeb/ [[PathCase]]] - save pathways and search results in BioPAX
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***[http://nashua.cwru.edu/PathwaysWeb/ PathCase] - save pathways and search results in BioPAX
 
***[http://pid.nci.nih.gov/PID/browse_pathways.shtml Pathway Interaction Database] - some pathways curated by NCI-Nature and many others imported from [[BioCarta]]
 
***[http://pid.nci.nih.gov/PID/browse_pathways.shtml Pathway Interaction Database] - some pathways curated by NCI-Nature and many others imported from [[BioCarta]]
 
**<b>[[Biological software supporting BioPAX]]</b>
 
**<b>[[Biological software supporting BioPAX]]</b>
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== Community ==
 
== Community ==
 
* Mailing Lists:  
 
* Mailing Lists:  
**[http://groups.google.com/group/biopax-discuss?lnk=li biopax discuss]  
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**[http://groups.google.com/group/biopax-discuss?lnk=li biopax discuss] - This is the main mailing list for all BioPAX community discussion.
 
* Old Mailing list (Archives still available)
 
* Old Mailing list (Archives still available)
 
**[http://www.biopax.org/mailman/listinfo/biopax-discuss biopax-discuss]  
 
**[http://www.biopax.org/mailman/listinfo/biopax-discuss biopax-discuss]  
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== BioPAX Workgroup Coordination ==
 
== BioPAX Workgroup Coordination ==
 
*[[L4Workgroups| Level 4 Workgroups]]
 
*[[L4Workgroups| Level 4 Workgroups]]
*Level 4 [[BioPAX Workgroup Coordination L4]] Page
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*Level 4 [[BioPAX Workgroup Coordination L4]] Page
 
*Level 3 [[BioPAX Workgroup Coordination]] Page
 
*Level 3 [[BioPAX Workgroup Coordination]] Page
 
* Next Workshop: [http://sbml.org/Events/Forums/COMBINE_2010 COMBINE 2010 Edinburgh, UK]
 
* Next Workshop: [http://sbml.org/Events/Forums/COMBINE_2010 COMBINE 2010 Edinburgh, UK]
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==Note==
 
==Note==
 
Many (but not all) BioPAX Wiki Pages Have Been Recently Auto-converted from the MoinMoin to MediaWiki. <br/>
 
Many (but not all) BioPAX Wiki Pages Have Been Recently Auto-converted from the MoinMoin to MediaWiki. <br/>
The Convertion Was Not Perfect, So We Encourage Everyone to Edit, Starting from the [[FrontPage|Original biopaxwiki Front Page]]  
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The Conversion Was Not Perfect, So We Encourage Everyone to Edit, Starting from the [[FrontPage|Original biopaxwiki Front Page]]  
 
or Picking up a [[Special:Random|Random Page]].
 
or Picking up a [[Special:Random|Random Page]].
  
The [http://archive.biopaxwiki.org Original Wiki Archive] Will Be Available Soon (readonly).
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The [http://archive.biopaxwiki.org Original Wiki Archive] is available (readonly).
  
 
Known Issues:
 
Known Issues:

Revision as of 03:13, 28 May 2010

BioPAX : Biological Pathways Exchange

BioPAX is a collaborative effort to create a data exchange format for biological pathway data.


Using BioPAX

Documentation

Community

BioPAX Workgroup Coordination


Note

Many (but not all) BioPAX Wiki Pages Have Been Recently Auto-converted from the MoinMoin to MediaWiki.
The Conversion Was Not Perfect, So We Encourage Everyone to Edit, Starting from the Original biopaxwiki Front Page or Picking up a Random Page.

The Original Wiki Archive is available (readonly).

Known Issues:

  • not all pages were copied, but they are available in the archive (exception: see the next issue)
  • after the conversion, a sub-page name became, e.g., "Page/SubPage", but the parent "Page" still refers to it as [[/SubPage]]. Therefore, this has to be changed manually to [[Page/SubPage]]
  • attachments were not copied; images can be easily uploaded and linked, but others: PDF, OWL, etc., cannot (there seems to be no simple solution, as the MediaWiki is globally configured, shared application at SourceForge). So, we manually uploaded them to http://sourceforge.net/projects/biopax/files (directory /other)
  • list items: you may find some pages look ugly due to extra spaces before * or # or broken nested lists (must be *, **, ***, etc. or #, ##, ###,..)