gene ontology project geneontology
DESCRIPTION
Gene Ontology Project http://www.geneontology.org/. Clark et al ., 2005. is_a. part_of. Clark et al ., 2005. Who uses GO?. National Institute on Alcohol Abuse and Alcoholism (NIAAA) National Institute on Aging (NIA) National Institute of Allergy and Infectious Diseases (NIAID) - PowerPoint PPT PresentationTRANSCRIPT
Gene OntologyProject
http://www.geneontology.org/
Clark et al., 2005
part_of
is_a
Clark et al., 2005
Who uses GO?
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
Publications
• Published articles
mentioning GO = 1063, in 284 journals
• Google Scholar• ‘gene ontology, tool for unification of biology’
1291 citations
25th September 2006
http://www.geneontology.org/cgi-bin/biblio.cgi
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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?
Mitochondrial P450 (CC24 PR01238; MITP450CC24)
Annotation
GO cellular component term:mitochondrial inner membrane ; GO:0005743
Where is it?
Mitochondrial p450
GO molecular function term:monooxygenase activity ; GO:0004497
What does it do?
substrate + O2 = CO2 +H20 product
http://ntri.tamuk.edu/cell/mitochondrion/krebpic.html
GO biological process term:electron transport ; GO:0006118
Which process is this?
monooxygenase activity ; GO:0004497
Other gene products:
MGI monooxygenase, DBH-like 1MGI prostaglandin I2 (prostacyclin) synthaseMGI splicing factor 3b, subunit 2SGD flavin-containing monooxygenaseTAIR FERULATE-5-HYDROXYLASE 1
Cell type ontology
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