1. Gene Ontology Project http://www.geneontology.org/

2. Clark et al., 2005 part_of is_a

3. Clark et al., 2005

4. Who uses GO?

5. 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

6. 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

7. Publications Published articles mentioning GO = 1063, in 284 journals Google Scholar ‘gene ontology, tool for unification of biology’ 1291 citations 25th September 2006

8. http://www.geneontology.org/cgi-bin/biblio.cgi 450 1063 publications over 284 Journals Who is citing GO?

9. Mitochondrial P450 ( CC24 PR01238; MITP450CC24) Annotation

10. GO cellular component term: mitochondrial inner membrane ; GO:0005743 Where is it? Mitochondrial p450

11. GO molecular function term: monooxygenase activity ; GO:0004497 What does it do? substrate + O 2 = CO 2 +H 2 0 product

12. http://ntri.tamuk.edu/cell/mitochondrion/krebpic.html GO biological process term: electron transport ; GO:0006118 Which process is this?

13. monooxygenase activity ; GO:0004497 Other gene products: MGImonooxygenase, DBH-like 1 MGIprostaglandin I2 (prostacyclin) synthase MGIsplicing factor 3b, subunit 2 SGD flavin-containing monooxygenase TAIR FERULATE-5-HYDROXYLASE 1

14. Cell type ontology

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

18. attacked time control Puparial adhesion Molting cycle hemocyanin Defense response Immune response Response to stimulus Toll regulated genes JAK-STAT regulated genes Immune response Toll regulated genes Amino acid catabolism Lipid metobolism Peptidase activity Protein catabloism Immune response Bregje Wertheim at the Centre for Evolutionary Genomics, Department of Biology, UCL and Eugene Schuster Group, EBI. …analysis of high-throughput data according to GO MicroArray data analysis