Difference between revisions of "Gene Class Descriptions"

From WormBaseWiki
Jump to navigationJump to search
m
Line 23: Line 23:
 
===CGI/OA===
 
===CGI/OA===
 
*Curator: drop down,  add Uma
 
*Curator: drop down,  add Uma
*Sentences from Arun: make sure name of sentence files can be queried based on gene_class
+
*Sentences from Arun: make sure name of sentence files can be queried based on gene_class name
*Gene_class: drop down, single ontology with term info: gene_class (linkable to wormpage), description, # of genes in class, list of cloned genes(linkable to page), #concise descriptions, list of all GO-bp and GO-mf associated with genes in class, associated laboratory
+
*Gene_class: drop down- single ontology with term info: gene_class (linkable to wormpage), description, laboratory, # of genes in class, # concise descriptions, # of cloned genes, list of all GO-bp and GO-mf associated with genes in class
 
*Summary: big text
 
*Summary: big text
 
*WBPaper: multi-ontology
 
*WBPaper: multi-ontology
 
*Other_source: free text
 
*Other_source: free text
*Summary status: dropdown done/incomplete/recheck
+
*Summary status: dropdown- done/incomplete/recheck
*Type of gene_class: dropdown  molecular/phenotype/phenotype-function/other
+
*Type of gene_class: dropdown- molecular/phenotype/phenotype-function/other
 +
 
 +
 
 +
[[Category:Curation]]

Revision as of 01:21, 7 June 2011

Gene Class Summaries

Gene class summaries are a new data type started in May 2011. The goal of this curation is to clarify what WB gene classes are, beyond a simple definition of the acronym itself. These summaries should be targeted to non-worm researchers as this is the audience that is most unfamiliar with worm biology and has the most need for a lay-person bridge to understanding the wealth of information made available through research on C. elegans and related nematodes.

Gene class summaries should contain a brief definition of the terms used in the name of the class, a brief historical note of how the genes came to be grouped together in that class, and a brief summary of the biology that is known about the members of the class or some other interesting tidbit that will entertain curiosity and further exploration into WormBase.


Number of gene classes 2270(WS225).

Tools

Textpresso: http://textpresso-dev.caltech.edu/celegans/
Do search (a good place to start is the spelled-out acronym)
Click "Use these results for sentence saver" ->needs to be fixed so all the sentences can be accessed through the sentence saver. Alternative, once a CGI/OA is built, these searches and sentences can be automatically uploaded into the curation form.
Once fixed, it should take you to the sentence saver webpage, name the file to save the textpresso results.
You should be able to access the file from the sentence saver, this will display all the textpresso results by paper.
Choose the sentences you want to use.
Name the sentence file.
That should take you to the category creator.
Name the category, choose the words to add to the category.
To see the final list, click 'Category'.
See if you can make a sentence out of it.

CGI/OA

  • Curator: drop down, add Uma
  • Sentences from Arun: make sure name of sentence files can be queried based on gene_class name
  • Gene_class: drop down- single ontology with term info: gene_class (linkable to wormpage), description, laboratory, # of genes in class, # concise descriptions, # of cloned genes, list of all GO-bp and GO-mf associated with genes in class
  • Summary: big text
  • WBPaper: multi-ontology
  • Other_source: free text
  • Summary status: dropdown- done/incomplete/recheck
  • Type of gene_class: dropdown- molecular/phenotype/phenotype-function/other