Table II.

GO functional enrichment analysis of target genes.

A, Biological process
Rank	ID	Term	List hits	List total	Population hits	Population total	P-value
1	GO:0006355	Regulation of transcription, DNA-dependent	607	3,540	1,900	14,200	6.83×10−14
2	GO:0007165	Signal transduction	341	3,540	1,146	14,200	6.18×10−5
3	GO:0007275	Multicellular organismal development	282	3,540	913	14,200	1.49×10−5
4	GO:0007155	Cell adhesion	204	3,540	542	14,200	1.62×10−11
5	GO:0006351	Transcription, DNA-dependent	203	3,540	538	14,200	1.40×10−11
6	GO:0006468	Protein phosphorylation	186	3,540	487	14,200	3.13×10−11
7	GO:0045944	Positive regulation of transcription from RNA polymerase II promoter	183	3,540	470	14,200	6.66×10−12
8	GO:0007399	Nervous system development	169	3,540	387	14,200	2.83×10−16
9	GO:0006915	Apoptosis	168	3,540	582	14,200	1.51×10−2
10	GO:0030154	Cell differentiation	158	3,540	496	14,200	2.40×10−4
B, Cellular component
Rank	ID	Term	List hits	List total	Population hits	Population total	P-value
1	GO:0005634	Nucleus	1,537	3,899	5,241	16,399	7.40×10−30
2	GO:0005737	Cytoplasm	1,471	3,899	4,954	16,399	4.45×10−31
3	GO:0005886	Plasma membrane	876	3,899	3,398	16,399	1.18×10−3
4	GO:0005829	Cytosol	562	3,899	1,980	16,399	2.54×10−7
5	GO:0005622	Intracellular	521	3,899	1,939	16,399	4.15×10−4
6	GO:0005730	Nucleolus	334	3,899	1,097	16,399	9.81×10−8
7	GO:0005794	Golgi apparatus	294	3,899	885	16,399	3.72×10−11
8	GO:0005783	Endoplasmic reticulum	248	3,899	952	16,399	4.95×10−2
9	GO:0005654	Nucleoplasm	240	3,899	813	16,399	6.67×10−5
10	GO:0005856	Cytoskeleton	239	3,899	773	16,399	2.03×10−6
C, Molecular function
Rank	ID	Term	List hits	List total	Population hits	Population total	P-value
1	GO:0005515	Protein binding	1,675	3,673	5,297	14,962	3.30×10−49
2	GO:0046872	Metal ion binding	790	3,673	2,879	14,962	3.88×10−5
3	GO:0008270	Zinc ion binding	571	3,673	1,988	14,962	2.68×10−6
4	GO:0000166	Nucleotide binding	569	3,673	1,985	14,962	3.65×10−6
5	GO:0003677	DNA binding	497	3,673	1,775	14,962	2.09×10−4
6	GO:0005524	ATP binding	402	3,673	1,494	14,962	1.44×10−2
7	GO:0003700	Sequence-specific DNA binding transcription factor activity	337	3,673	936	14,962	4.15×10−16
8	GO:0005509	Calcium ion binding	206	3,673	649	14,962	1.36×10−5
9	GO:0043565	Sequence-specific DNA binding	205	3,673	548	14,962	6.39×10−12
10	GO:0003723	RNA binding	170	3,673	608	14,962	2.69×10−2

‘List hits’ indicates the number of genes annotated by the considered GO category or annotation cluster within the analyzed list of target genes. ‘List total’ indicates the number of genes within the analyzed list of target genes having at least one GO annotation. ‘Population hits’ indicates the number of genes, available on the entire microarray, annotated by the considered GO category or annotation cluster. ‘Population total’ indicates the number of genes available on the entire microarray and having at least one GO annotation. P-value indicates the significance P-value of the gene enrichment of the considered GO category or annotation cluster, calculated with a unilateral Fisher's exact test. GO, Gene Ontology.