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Editor - Ruth Lovering
Varsha Khodiyar has returned from maternity leave and has taken on the design of new web pages for the Cardiovascular GO Annotation Initiative, as well as GO annotation. These pages are accessible from our permanent address www.cardiovasculargeneontology.com, so please update your bookmarks. Varsha hopes to have completed the web site by the end of August, please bear with us until then.
Gene Annotation
To date, this initiative has associated over 3000 GO terms to almost 400 proteins, of which 1923 are to 252 human proteins. 99 prioritised genes have been comprehensively annotated using GO terms, including ACE, ACE2, AGTR1, AGTR2, BBS1, BBS2, BBS4, BBS5, NOX1, OBSL1, P2RX4, P2RX7, PAFAH1B1, VNN1 and WFS1. Current gene targets can be viewed here.
Obviously, it will take considerable time to comprehensively annotate some genes, therefore 10 highly investigated genes, BMPR2, IGF1 , INS, INSR, PDGFA, PDGFRA, PPARG, RXRA, SORT1 and TNF , have only been given a 'first pass' annotation. Hopefully next year we will have time to revisit these genes and increase both the number and the quality of their associated GO terms.
Gene Ontology development
26 cardiovascular issues have been raised with the Gene Ontology Editorial team since the last Newsletter in April. These issues cover a variety of subjects but many requests have resulted in new terms being added to GO, such as BBSome (Bardet-Biedl syndrome complex), smooth muscle cell apoptosis, positive regulation of VEGF production and negative regulation of cardiac muscle hypertrophy.
Contributions from the cardiovascular community
Eleven scientists visited our poster at the UCL Cardiovascular Science and Medicine day, on 12th June, and suggested a variety of genes for annotation including PPP3CB (Calcineurin), CNP, GRK2 , HAND1, IL18, NEP, and NRP1 . Several of these scientists also agreed to review the annotations of their favourite genes, such as HAND1, HIF1A, MBL and GRK5. We have also been contacted by an Iranian scientist who found our project through Google and is interested in helping with the annotation of VEGFA , TERT and EDN1-3.
See our homepage to find out how to help improve the annotation of your favorite gene.
Publications
Cardiovascular GO Annotation Initiative Year 1 Report : Why Cardiovascular GO?
Ruth C Lovering, Emily Dimmer, Varsha K Khodiyar, Daniel G Barrell, Peter Scambler, Mike Hubank, Rolf Apweiler, Philippa J Talmud. Proteomics 2008 May; 8(10): 1950-3. PMID: 18491309
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Immunology on the GO
Alexander D Diehl, Evelyn B Camon, Ruth C Lovering. Immunology News 2008 May; 15-21
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Upcoming Meetings
Ruth will be giving a lecture entitled "The Cardiovascular Gene Ontology Annotation Initiative" at the Cardiovascular Initiative Workshop of the HUPO 7th Annual World Congress, Amsterdam (16-20th August). She will also be presenting a poster at the main HUPO meeting entitled "Participate in the Cardiovascular Gene Ontology Annotation Initiative".