ZFIN, September 2009

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ZFIN, The Zebrafish Information Resource, September 2009 / WORKING VERSION, NOT FINAL VERSION;

1. Staff working on GOC tasks

Name FTE
Doug Howe 0.60
Leyla Bayraktaroglu 0.05
Yvonne Bradford 0.05
David Fashena 0.05
Ken Frazer 0.05
Melissa Haendel 0.05
Sridhar Ramachandran 0.05
Barbara Ruef 0.05
Amy Singer 0.05
Ceri Van Slyke 0.05

The total number of FTE working on GOC tasks is 1.0.

0 FTE funding is provided from the GOC NIHGRI grant.

2. Annotation progress

Table 1: Number of Annotations to Various GO Aspects

Annotations BP (1/11/09) BP (9/1/09) change MF (1/11/09) MF (9/1/09) change CC (1/11/09) CC (9/1/09) change
non-IEA/non-ND 5652 6368 +716 1096 1177 +81 618 680 +62
IEA 18385 21149 +2764 35413 41086 +5673 15279 16961 +1682
ND 4723 4611 -112 4206 4109 -97 5741 5577 -164

Table 2: Number of Genes Annotated to Various GO Aspects

Genes BP (1/11/09) BP (9/1/09) change MF (1/11/09) MF (9/1/09) change CC (1/11/09) CC (9/1/09) change
non-IEA/non-ND 1573 1755 +182 642 693 +51 400 439 +39
IEA 7096 7368 +272 9492 9628 +136 6676 6840 +164
ND 4723 4611 -112 4206 4109 -97 5741 5577 -164

3. Methods and strategies for annotation

a. Literature curation: We continue to focus our GO curation effort on annotation of gene products from the current literature as well as any older literature associated with genes targeted as part of the Reference Genomes project.

b. Computational annotation strategies: Each month we update our UniProt data. At that time, we also apply the current ec2go, interpro2go and ec2go translations to produce IEA annotations. These are dumped and reloaded from scratch at each new UniProt load into ZFIN.

c. Priorities for annotation:

(1) Current literature describing new genes or alleles

(2) All literature associated with genes targeted in the Ref. Genomes project


4. Presentations and publications

None

5. Other Highlights

A. Ontology Development Contributions

since January, 2009: 8 SourceForge requests producing 13 new terms. 2 of the 8 requests remain open as of 9/3/09.

B. Talks

None

C. Other highlights

None