Sept2006 GO Ed report
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GO Editorial Office Report - September 2006
SourceForge items Items opened 59 Closed by editorial office 46 (note: 17 SF items closed outside GO-Ed. this month; see end of report for details and for non-GO-Ed contributors to items we closed) Items in progress, assigned to editorial office 71 The big jump in items closed outside GO-Ed is due to two factors: (1) Alex committed the immunology revisions, which touched on several items; and (2) SGD curators have resumed active editing. Of the closed items, 5 came from reference genome annotation. See monthly report in CVS for ontology statistics. Erika's project: Erika has approval from her supervisors to work on 'response to drug' terms, and she's come up with a plan: GSK has a tool for identifying drugs of interest, which she'll use to figure out which substances should be represented in GO terms. She'll propose terms to Jen, who will do an initial check and then forward to other curators for additional comments. The usual GO procedures take over from there. Erika and her supervisor have also proposed a content meeting on muscle development, which would be held in Italy. Content topics in progress (also see content wg below): is_a complete biological process PAMGO additions (Amelia) Content topics resolved: Several small things for SourceForge items (mainly Midori) Content working group update: Progress on is_a complete biological process ontology at meeting in Seattle; summary on wiki (http://wiki.geneontology.org/index.php/Isa-complete_BP) (Jane, Jen, David Hill, Tanya Berardini) CNS development portion of biological process made is_a complete (David, Jen, Amelia) OBO-Edit working group update: Confirm (and make small adjustments to) OBO-Edit 1.1 feature list OBO-Edit 1.1 beta release and testing cycle in progress OBO-Edit 1.2 features under discussion Improve the built-in reasoner Implement graph viewer-based editing Plan for curators to come up with editing-function wish list Early stages of planning a meeting on OBO-Edit (John, Chris) AmiGO working group (Jane, Amelia): Testing for (slightly delayed) August release; release done Beginning work toward AmiGO as 'software hub' Gathering requirements & use cases Work on getting user feedback Advocacy group (Jane): Quiet due to holidays Annotation outreach (Jen): ARK-Genomics (see meetings below) New contacts: Atlantic Salmon Newly formed cow/sheep UK group. Annotation documentation for new groups in progress Conferences/meetings GO External Advisory Board Meeting, Sept. 7, 2006, Seattle (Midori, Jane, Jen) MGED9, Sept 7-9, Seattle (Midori (8th-9th)) Meeting to work on is_a complete biological process (see content wg above) GO Users Meeting, Sept. 10, Seattle (Midori, Jane, Jen) ARK-Genomics Meeting, Cambridge (Jen) Introduction to GO; AmiGO/GO web site demo; poster Planning for PAG outreach (Jen, with Rama, Trudy, Michelle, Fiona and Candace) mesh2go mapping in progress (Jane) Work on web pages (not yet live) (Amelia) Page reorganization and mock ups for new pages (e.g. the front page and current annotations page) Updating code and content to bring it up to web content accessibility guidelines Updating code for easier integration of AmiGO into the current website Updating out-of-date content (ongoing) OBO work - adding ontologies and corresponding with various ontology submitters (Amelia) Testing web conference software (Jen, Midori, Amelia) Preparing grant to support immunology annotation (Jen, with Evelyn and others) A few queries on the mailing lists (various people in and outside GO Ed.) GO Bibliography now has 1063 entries (hooray for the PLoS full text search) Appendix 1: Items closed outside GO-Ed this month 1031159, 1301814, 1371824, 1489769, 1513908, 1513909, 1526292 - content by Alex Diehl, Amelia Ireland, and immunology content meeting participants; for 1031159, Suparna Mundodi, Michelle Gwinn, Tanya Berardini also involved; edits done by Alex & Amelia; items closed by Alex 1527944 - Julie Park 1544157 - content by Karen Christie, Eurie Hong, Varsha Khodiyar; edits done by Karen Christie 1546289 - content by Julie Park, Karen Christie; edits done by Karen Christie 1549220 - content by Eurie Hong, Midori Harris; edits done by Karen Christie 1556745 - content by Karen Christie, Eurie Hong, Val Wood; edits done by Karen Christie 1557003 - content by Val Wood, Karen Christie; edits done by Karen Christie 1562934 - content by David Hill; edits by Harold Drabkin 1562981 - content by David Hill, Tanya Berardini, Midori Harris, Karen Christie; edits done by Karen Christei 1563159 - content by Eurie Hong; edits done by Karen Christie 1565282 - Karen Christie 1565292 - content by Karen Christie, Midori Harris; edits done by Karen Christie Appendix 2: input from others on SF items closed this month 1425417 - Rob Nash 1427790 - David Hill, Doug Howe, Harold Drabkin, Karen Christie 1438187 - David Hill, Becky Foulger 1481900 - Doug Howe 1493875 - Karen Christie, Val Wood, Pascale Gaudet 1532264 - Rama Balakrishnan, Val Wood 1548729 - Karen Christie, Pascale Gaudet 1553364 - Varsha Khodiyar, David Hill, Eurie Hong 1563799 - Doug Howe 1566423 - Alex Diehl