Difference between revisions of "WormBase December 2012"

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== Methods and strategies for annotation ==
'''''Literature curation:'''''
Literature curation continues to be the major focus of our annotation efforts.
'''''Computational annotation strategies:'''''
As always, current strategies involve use of translation table to mine SwissProt keywords, InterPro domains, and EC numbers for IEA annotation. These are performed automatically on a nightly basis and require little human intervention.
'''''Priorities for annotation'''''


Kimberely Van Auken is developing GO-CAT.   
Kimberely Van Auken is developing GO-CAT.   

Revision as of 13:18, 13 December 2012

WormBase Summary, December 2012

Overview

WormBase has two main tasks. One is to work on Aim 4 (Common Annotation Framework), which is described under Software Group. The second is annotation. Most of our efforts over the past year were directed towards software development; remaining efforts were focused on annotation.

Staff:

WormBase

  • Paul Sternberg, PI
  • Juancarlos Chan, software developer
  • Ranjana Kishore, curator
  • Kimberly Van Auken, curator

Textpresso

  • Hans Michael Mueller, PI
  • James Done, software developer
  • Yuling Li, software developer


Annotation Progress

WormBase GO Annotation Statistics as of December 2012

Table 1: Number of Genes Annotated

Type of Annotation Genes Annotated, Dec 2012 % Change from Dec 2011 Number of Unique GO Terms % Change from 2011 Total Number of GO Terms % Change from Dec 2011
Manual Annotation 2,601 +9.93 2,310 +17.8 13392 +16.9
Phenotype2GO Mappings 6,423 +3.1 116 +0.87 44,256 +2.9
IEA/Electronic 13,739 +1.0 1,548 +3.4 55,091 -6.1
Total 16,493 +1.4 3,420 +4.8 106,604 +2.6


Methods and strategies for annotation

Literature curation:

Literature curation continues to be the major focus of our annotation efforts.

Computational annotation strategies:

As always, current strategies involve use of translation table to mine SwissProt keywords, InterPro domains, and EC numbers for IEA annotation. These are performed automatically on a nightly basis and require little human intervention.

Priorities for annotation




Kimberely Van Auken is developing GO-CAT.

Ranjana Kishore particpated in the PAINT training workshop in December 2012.

Ranjana Kishore is working on evaluation of website usability.

Caltech hosted the GOC meeting in October 2012.

Back to Project Reports 2012