Dear gene page readers,
This last May I wrote:
> As a target goal, a proposal for unified gene pages could be ready for
> GMOD meeting in Fall 2004.
We missed this goal, but people at this week's GMOD meeting reiterated
a desire to work together for a common gene summary.
Contest of the week:
List the biological contents, and their overall
categories, common to model organism gene pages.
Please reply to this group with your list by 15 October.
Rules:
1. Focus on biology now, leave computing to later. The major need
is to distill biological knowledge about genes to say what
MODs should be representing in a common way.
2. Look over example MOD gene pages. The approach suggested of
removing HTML to look at content, labels and organization struck a chord
in meeting discussion.
3. Your contents and organization need not be common to all MOD pages, but
should reflect a "minimal" set of important gene attributes that most
organisms share, and most bioscientists want as reference.
I've broken rule 1 by spending some time over the summer computing on
this. You can find example gene pages, along with a Gene
Page Scraper that will turn existing MOD gene pages into some semblence
of common structure, here
http://eugenes.org/all/gene-report-examples/
Here a starter list of common gene attributes
* Names, symbols/IDs, synonyms
* Map locations
* Sequences
* Reagents
* Gene ontology
* Similar Genes
* Database cross-refs, External links
* Alleles, Transcripts
* Proteins, Structure and Domains
* Expression and Mutant Phenotypes
* Gene Interactions
* Literature references
* Summary Text
GMOD Gene Page Working Group
------------------------------------------------
This group will discuss and propose a common gene page that model
organism/genome database members can agree to produce in some form. All
interested parties can contribute.
-- Don
-- d.gilbert--bioinformatics--indiana-u--bloomington-in-47405
-- gil...@in...--http://marmot.bio.indiana.edu/
|
