Clusters

H_sapiens.NCBIREFSEQ3UTR.fa.activation_FINAL (n = 1853): Summary of GO annotations Details

H_sapiens.NCBIREFSEQ3UTR.fa.activation_FINAL (n = 1853) Biological Process Molecular Function Cellular Component

Biological Process

Name	ID	Count	Percent (Study Genes)	Percent (Population Genes)	E value
biological_process	GO:0008150	504	27.2%	27.11%	0.47(n.s)
physiological process	GO:0007582	341	18.4%	18.39%	0.51(n.s)
metabolism	GO:0008152	202	10.9%	11.72%	0.9(n.s)
primary metabolism	GO:0044238	161	8.69%	8.86%	0.63(n.s)
cell communication	GO:0007154	110	5.94%	5.59%	0.25(n.s)
nucleobase, nucleoside, nucleotide and nucleic acid metabolism	GO:0006139	106	5.72%	4.83%	0.03(n.s)
transcription	GO:0006350	100	5.4%	4.52%	0.03(n.s)
transport	GO:0006810	95	5.13%	5.78%	0.92(n.s)
signal transduction	GO:0007165	88	4.75%	4.74%	0.51(n.s)
development	GO:0007275	73	3.94%	3.48%	0.13(n.s)
cell cycle	GO:0007049	49	2.64%	1.56%	5.9E-5(5.72E-3)
biological process unknown	GO:0000004	39	2.1%	2.24%	0.7(n.s)
cell-cell signaling	GO:0007267	32	1.73%	1.37%	0.09(n.s)
cell differentiation	GO:0030154	27	1.46%	0.94%	9.54E-3(0.93)
cell proliferation	GO:0008283	27	1.46%	1.17%	0.12(n.s)
protein metabolism	GO:0019538	26	1.4%	2.18%	1(n.s)
ion transport	GO:0006811	25	1.35%	1.22%	0.33(n.s)
biosynthesis	GO:0009058	25	1.35%	1.96%	0.99(n.s)
protein transport	GO:0015031	24	1.3%	1.29%	0.52(n.s)
generation of precursor metabolites and energy	GO:0006091	23	1.24%	1.75%	0.98(n.s)
electron transport	GO:0006118	21	1.13%	1.45%	0.92(n.s)
protein biosynthesis	GO:0006412	20	1.08%	1.76%	1(n.s)
lipid metabolism	GO:0006629	15	0.81%	0.95%	0.79(n.s)
carbohydrate metabolism	GO:0005975	15	0.81%	0.98%	0.83(n.s)
morphogenesis	GO:0009653	10	0.54%	0.55%	0.58(n.s)
cell organization and biogenesis	GO:0016043	6	0.32%	0.5%	0.92(n.s)
protein modification	GO:0006464	6	0.32%	0.39%	0.76(n.s)
organelle organization and biogenesis	GO:0006996	5	0.27%	0.35%	0.8(n.s)
response to stress	GO:0006950	4	0.22%	0.28%	0.8(n.s)
cytoskeleton organization and biogenesis	GO:0007010	3	0.16%	0.32%	0.95(n.s)
embryonic development	GO:0009790	2	0.11%	0.08%	0.48(n.s)
cell recognition	GO:0008037	1	0.05%	0.01%	**
death	GO:0016265	1	0.05%	0.07%	0.78(n.s)
cell death	GO:0008219	1	0.05%	0.07%	0.78(n.s)
DNA metabolism	GO:0006259	1	0.05%	0.07%	0.78(n.s)
mitochondrion organization and biogenesis	GO:0007005	1	0.05%	0.02%	0.35(n.s)
amino acid and derivative metabolism	GO:0006519	1	0.05%	0.03%	0.48(n.s)

Molecular Function

Name	ID	Count	Percent (Study Genes)	Percent (Population Genes)	E value
molecular_function	GO:0003674	648	34.97%	35.54%	0.72(n.s)
binding	GO:0005488	491	26.5%	25.91%	0.27(n.s)
protein binding	GO:0005515	225	12.14%	11.42%	0.15(n.s)
nucleic acid binding	GO:0003676	189	10.2%	8.92%	0.02(n.s)
catalytic activity	GO:0003824	157	8.47%	8.07%	0.25(n.s)
DNA binding	GO:0003677	143	7.72%	6.57%	0.02(n.s)
nucleotide binding	GO:0000166	125	6.75%	6.43%	0.28(n.s)
signal transducer activity	GO:0004871	91	4.91%	4.29%	0.08(n.s)
transferase activity	GO:0016740	85	4.59%	4.23%	0.21(n.s)
hydrolase activity	GO:0016787	66	3.56%	3.7%	0.66(n.s)
receptor activity	GO:0004872	65	3.51%	2.96%	0.07(n.s)
transcription regulator activity	GO:0030528	62	3.35%	2.97%	0.16(n.s)
transcription factor activity	GO:0003700	58	3.13%	2.81%	0.2(n.s)
calcium ion binding	GO:0005509	49	2.64%	3.14%	0.93(n.s)
molecular function unknown	GO:0005554	43	2.32%	2.63%	0.85(n.s)
RNA binding	GO:0003723	40	2.16%	1.71%	0.06(n.s)
transporter activity	GO:0005215	22	1.19%	1.4%	0.84(n.s)
structural molecule activity	GO:0005198	17	0.92%	1.16%	0.89(n.s)
cytoskeletal protein binding	GO:0008092	12	0.65%	0.93%	0.94(n.s)
kinase activity	GO:0016301	12	0.65%	0.51%	0.21(n.s)
peptidase activity	GO:0008233	11	0.59%	0.54%	0.41(n.s)
actin binding	GO:0003779	11	0.59%	0.84%	0.93(n.s)
receptor binding	GO:0005102	9	0.49%	0.35%	0.18(n.s)
chromatin binding	GO:0003682	6	0.32%	0.19%	0.12(n.s)
lipid binding	GO:0008289	5	0.27%	0.43%	0.92(n.s)
ion channel activity	GO:0005216	4	0.22%	0.32%	0.86(n.s)
protein kinase activity	GO:0004672	3	0.16%	0.13%	0.42(n.s)
motor activity	GO:0003774	3	0.16%	0.24%	0.86(n.s)
oxygen binding	GO:0019825	2	0.11%	0.21%	0.92(n.s)
phosphoprotein phosphatase activity	GO:0004721	2	0.11%	0.08%	0.48(n.s)
electron carrier activity	GO:0009055	2	0.11%	0.03%	0.1(n.s)
antioxidant activity	GO:0016209	1	0.05%	0.07%	0.78(n.s)

Cellular Component

Name	ID	Count	Percent (Study Genes)	Percent (Population Genes)	E value
cellular_component	GO:0005575	596	32.16%	33.27%	0.88(n.s)
cell	GO:0005623	506	27.31%	26.9%	0.34(n.s)
intracellular	GO:0005622	477	25.74%	25.34%	0.34(n.s)
organelle	GO:0043226	412	22.23%	20.62%	0.03(n.s)
nucleus	GO:0005634	269	14.52%	12.81%	8.37E-3(0.81)
cytoplasm	GO:0005737	210	11.33%	12.51%	0.96(n.s)
extracellular region	GO:0005576	70	3.78%	5.07%	1(n.s)
endoplasmic reticulum	GO:0005783	51	2.75%	2.19%	0.04(n.s)
mitochondrion	GO:0005739	50	2.7%	3.15%	0.91(n.s)
extracellular space	GO:0005615	39	2.1%	2.35%	0.8(n.s)
plasma membrane	GO:0005886	37	2%	1.99%	0.52(n.s)
cellular component unknown	GO:0008372	35	1.89%	2.27%	0.91(n.s)
protein complex	GO:0043234	15	0.81%	1.02%	0.88(n.s)
cytosol	GO:0005829	14	0.76%	1.18%	0.98(n.s)
cytoskeleton	GO:0005856	14	0.76%	1.06%	0.95(n.s)
extracellular matrix (sensu Metazoa)	GO:0005578	12	0.65%	0.82%	0.86(n.s)
ribosome	GO:0005840	11	0.59%	0.83%	0.92(n.s)
lysosome	GO:0005764	11	0.59%	0.62%	0.62(n.s)
vacuole	GO:0005773	11	0.59%	0.7%	0.77(n.s)
peroxisome	GO:0005777	7	0.38%	0.36%	0.51(n.s)
chromosome	GO:0005694	7	0.38%	0.33%	0.4(n.s)
nucleolus	GO:0005730	6	0.32%	0.28%	0.44(n.s)
Golgi apparatus	GO:0005794	5	0.27%	0.16%	0.15(n.s)
nucleoplasm	GO:0005654	4	0.22%	0.2%	0.52(n.s)
nuclear envelope	GO:0005635	2	0.11%	0.14%	0.75(n.s)
nuclear chromosome	GO:0000228	2	0.11%	0.06%	0.33(n.s)
cytoplasmic membrane-bound vesicle	GO:0016023	2	0.11%	0.06%	0.33(n.s)

The Ontologizer v. 0.2 displays statistical rank scores for overrepresentation of particular GO terms in the dataset as determined by the hypergeometric distribution based on Castillo-Davis et al. (2003).

The E values shown are displayed both without correction for multiple testing and (in parentheses)corrected for multiple testing by a Bonferroni correction. This conservative correction multiplies the nominal p value by the number of tests performed, i.e. by the number of GO terms for which more than one gene (product) in the population is annotated:

97 GO terms for direct annotations
106 GO terms for total annotations
Total number of population genes/proteins: 9488 (of which annotations were found for 4665)
"**" is shown in the E-value column if no testing was performed because only one gene in the population was annotated to the term.

Note that we do not correct for terms for which there is no annotation in the population (overrepresentation is obviously impossible) or for which only one gene in the population is annotated (statistical testing doesn't really make sense in this case). The number of annotated genes in the study group is not taken into account for multiple-testing corrections.

The Gene Ontology Consortium provides a dynamic controlled vocabulary of biological functions. Associations between genes or gene products and GO terms are available from the Gene Ontology website. Functional annotations are divided into three categories:

Molecular Function
Biological Process
Cellular Component

The terms in GO form a directed acyclic graph (DAG), such that specific terms are children of more general terms.Collaborating databases generate gene association files consisting of links between GO terms and genesor gene products. These annotations are made at the most specific level possible but genes are understood to share annotations from all ancestor terms of the specifically annotated term. The Ontologizer shows "Total Annotations" includes explicit annotations as well as inferred annotations. The explicit (direct) annotations are not shown in this page but can be seen in the XML output of the Ontologizer.

Each GO term represented by a GO_id of the form GO:nnnnnnn, where nnnnnnn is a unique zero-padded integer of seven digits, and a descriptive name. The Gene Ontology documentation offers more details.

The following files were used to generate these pages:

goslim_generic.obo(v. 1.0: from 28:03:2006 16:38)
association file: gene_association.goa_human

These pages were generated by the Ontologizer.