Gene OntologyProject

http://www.geneontology.org/

http://www.geneontology.org/cgi-bin/biblio.cgi

0 50 100 150 200 250 300 350 400 450 500

overviews of GO

Network modeling and analysis

Supporting predictions

Comparative genomics and evolutionary analysis

GO annotations

Genome Annotation

GO Consortium

Protein Annotation

Proteomics studies

EST annotation

OBO Ontologies

Data and Text mining

GO Annotation Predictions

Biological Databases

GO Tools

Other

Clinical applications

Gene Expression studies

450

1063 publications

over 284 Journals

Who is citing GO?

Week ending 25th September 2006

1. National Institute on Alcohol Abuse and Alcoholism (NIAAA)

2. National Institute on Aging (NIA)3. National Institute of Allergy and Infectious

Diseases (NIAID)4. National Institute of Arthritis and

Musculoskeletal and Skin Diseases (NIAMS)

5. National Center for Complementary and Alternative Medicine (NCCAM)

6. National Cancer Institute (NCI)7. National Institute on Drug Abuse (NIDA)8. National Institute on Deafness and Other

Communication Disorders (NIDCD)9. National Institute of Dental & Craniofacial

Research (NIDCR)10. National Institute of Diabetes and Digestive

and Kidney Diseases (NIDDK)11. National Institute of Biomedical Imaging

and Bioengineering (NIBIB)12. National Institute of Environmental Health

Sciences (NIEHS)

13. National Eye Institute (NEI)14. National Institute of General Medical Sciences

(NIGMS)15. National Institute of Child Health and Human

Development (NICHD)16. National Human Genome Research Institute

(NHGRI)17. National Heart, Lung and Blood Institute

(NHLBI)18. National Library of Medicine (NLM)19. National Center on Minority Health and Health

Disparities (NCMHD)20. National Institute of Mental Health (NIMH)21. National Institute of Nursing Research (NINR)22. National Institute of Neurological Disorders

and Stroke (NINDS)23. National Center for Research Resources

(NCRR)24. Fogarty International Center (FIC)

Sample of 77 research papers, both intra-mural & extra-mural research.

NIH funded experimental research that uses the GO

Companies

• NLP & Ontology Products BioWisdom, IBM• Array Products and data analysis Affymetrix,

Spotfire• Products that use GO Clontech, Inpharmatica• Reagents & services Sigma, Abnova• Big Pharmas AstraZeneca

Clark et al., 2005

part_of

is_a

Clark et al., 2005

Whole genome analysis(J. D. Munkvold et al., 2004)

Selected Gene Tree: pearson lw n3d ...Branch color classification:Set_LW_n3d_5p_...

Colored by: Copy of Copy of C5_RMA (Defa...Gene List: all genes (14010)

attacked

time

control

Puparial adhesionMolting cyclehemocyanin

Defense responseImmune responseResponse to stimulusToll regulated genesJAK-STAT regulated genes

Immune responseToll regulated genes

Amino acid catabolismLipid metobolism

Peptidase activityProtein catabloismImmune response

Selected Gene Tree: pearson lw n3d ...Branch color classification:Set_LW_n3d_5p_...

Colored by: Copy of Copy of C5_RMA (Defa...Gene List: all genes (14010)

Bregje Wertheim at the Centre for Evolutionary Genomics, Department of Biology, UCL and Eugene Schuster Group, EBI.

…analysis of high-throughput data according to GOMicroArray data analysis

P05147

P05147

PMID: 2976880

P05147

PMID: 2976880

GO:0047519

P05147

PMID: 2976880

GO:0047519

IDA

P05147

PMID: 2976880

GO:0047519

IDA

P05147

PMID: 2976880

GO:0047519

IDA

Clark et al., 2005

part_of

is_a

Clark et al., 2005

part_of

is_a

Whole genome analysis(J. D. Munkvold et al., 2004)

Selected Gene Tree: pearson lw n3d ...Branch color classification:Set_LW_n3d_5p_...

Colored by: Copy of Copy of C5_RMA (Defa...Gene List: all genes (14010)

attacked

time

control

Puparial adhesionMolting cyclehemocyanin

Defense responseImmune responseResponse to stimulusToll regulated genesJAK-STAT regulated genes

Immune responseToll regulated genes

Amino acid catabolismLipid metobolism

Peptidase activityProtein catabloismImmune response

Selected Gene Tree: pearson lw n3d ...Branch color classification:Set_LW_n3d_5p_...

Colored by: Copy of Copy of C5_RMA (Defa...Gene List: all genes (14010)

Bregje Wertheim at the Centre for Evolutionary Genomics, Department of Biology, UCL and Eugene Schuster Group, EBI.

…analysis of high-throughput data according to GOMicroArray data analysis

http://www.psb.ugent.be/

2006 Consortium Meeting,

St. Croix,

U.S. Virgin Islands, March 30 - April 3, 2006

Contributors

dictyBase FlyBase GeneDB Gramene

Reactome WormBase The GO Editorial Office

Berkeley Bioinformatics and Ontology Project (BBOP)

Gene Ontology Annotation @ EBI (GOA)

Mouse Genome Database (MGD) and Gene Expression Database (GXD)

Rat Genome Database (RGD)

Saccharomyces Genome Database (SGD)

The Arabidopsis Information Resource (TAIR)

The Institute for Genomic Research (TIGR)

Zebrafish Information Network (ZFIN)