PomBase December 2014

PomBase Summary, 2013/2014

Staff

Three PomBase curation staff (V. Wood, M Harris, A Lock) are working on GO-related tasks, none funded by the GO grant.

Annotation Progress

Of the 5052 protein coding genes, none-root node annotations are assigned for: GO:0003674 - molecular_function 3682/5052 GO:0005575 - cellular_component 4894/5052 GO:0008150 - biological_process 4316/5052 Only 89 proteins have ND annotation for all 3 aspects

State of GO annotations Genome wide

|All annotations |xxx |- |Total Annotations with Manual curation |xxx |- |Total Annotations with Computational Evidence |xxx |Annotations with No Data (ND) |xxx |- |}

Methods and strategies for annotation (please note % effort on literature curation vs. computational annotation methods)

edit c. Priorities for annotation: The highest priority is to capture annotations where new information is available for an Uncharacterized gene product. These papers are identified during the literature triage process. SGD also collects information from Authors about the data in their papers (aka FastTrack). SGD prioritizes papers based on the response from the authors. In addition, we update older annotations. SGD captures the date when the annotations for a gene were reviewed. Using this date reviewed, older annotations are checked for consistency with the current literature.

PomBase curators are routinely creating terms via the new TermGenie interface to speed up the process of annotation.

PomBase curators are capturing more specificity for annotations by adding substrate, targets etc in the Annotation Extension column (aka col-16) using the protein2GO interface. ADD NUMBERS

PomBase curators are up to date with the GAF checks on Jenkins and the protein2GO error checks

Other Highlights

• PomBase curators participate in Annotation conference calls