Table 3

Function annotation for 51 homotypic TF combinations

TFs

GO biological process categories


AP3

Cell adhesion; cellular localization; cellular process; extracellular matrix organization and biogenesis; innate immune response; intracellular transport; second-messenger-mediated signaling

CAAT*

Cell cycle; cell division [36]; cell organization and biogenesis; chromosome organization and biogenesis; DNA-dependent DNA replication; nucleobase, nucleoside, nucleotide and nucleic acid metabolism; protein localization; steroid biosynthesis

CACBINDING PROTEIN

Calcium ion transport; cellular process; intracellular signaling cascade; morphogenesis; nervous system development; organ development; regulation of signal transduction

CEBPB

Cellular carbohydrate metabolism

CETSP154

Cell organization and biogenesis; cellular localization; cellular process; organelle organization and biogenesis; protein localization; ribosome biogenesis; ubiquitin cycle; vesicle-mediated transport

CETS168

Cellular physiological process

CP2

N/A

CREB

N/A

DBP

Apoptosis; cell adhesion; endocytosis; innate immune response; intracellular signaling cascade; lipid metabolism; phosphate transport; protein kinase cascade; response to endogenous stimulus; RNA processing

DEAF1

N/A

DELTAEF1

Cell adhesion

E12

N/A

E2F1*

Cell cycle [25-28]; cholesterol metabolism; nucleobase, nucleoside, nucleotide and nucleic acid metabolism; sterol metabolism

EGR*

Apoptosis; brain development; cell cycle; cell proliferation; central nervous system development; development [49]; endocytosis; enzyme linked receptor protein signaling pathway; galactose metabolism; intracellular signaling cascade; metal ion transport; nervous system development [49]; protein amino acid phosphorylation; protein kinase cascade; small GTPase mediated signal transduction; synaptic transmission; transcription [37]; ubiquitin cycle

ETF*

Cell cycle; cell proliferation; cellular lipid metabolism; central nervous system development; dephosphorylation; endocytosis; enzyme linked receptor protein signaling pathway; gluconeogenesis; heart development; hexose biosynthesis; intracellular signaling cascade; muscle development; neurite morphogenesis [38]; programmed cell death; protein kinase cascade; regulation of nucleocytoplasmic transport; response to DNA damage stimulus; small GTPase mediated signal transduction

FAC1

Cell adhesion; cell cycle; cellular lipid metabolism; endocytosis; I-kappaB kinase/NF-kappaB cascade; intracellular signaling cascade, via spliceosome; proteolysis; secretion. carbohydrate metabolism; DNA repair; nuclear import; protein kinase cascade; protein localization; response to endogenous stimulus; RNA splicing; ubiquitin cycle; vesicle-mediated transport; cytoplasm organization and biogenesis; innate immune response; endoplasmic reticulum to Golgi vesicle-mediated transport; microtubule cytoskeleton organization and biogenesis; wound healing; protein amino acid glycosylation

FOX

N/A

FREAC7

N/A

GATA1

N/A

GC*

Apoptosis [35]; cell proliferation [35]; actin cytoskeleton organization and biogenesis; cell cycle; cellular lipid metabolism; central nervous system development; endocytosis; enzyme linked receptor protein signaling pathway; endoplasmic reticulum to Golgi vesicle-mediated transport; gluconeogenesis; hexose biosynthesis; muscle development; nervous system development; Notch signaling pathway; nucleocytoplasmic transport; protein kinase cascade; small GTPase mediated signal transduction; synaptic transmission; transmembrane receptor protein tyrosine kinase signaling pathway; ubiquitin cycle; vesicle-mediated transport

HELIOSA

Cellular physiological process; development; homophilic cell adhesion; regulation of metabolism

HNF1*

Organic anion transport [39]; innate immune response

HNF3B

Lipid metabolism; DNA metabolism

IRF7*

Immune response [40]

KROX*

Actin cytoskeleton organization and biogenesis; cell cycle; enzyme linked receptor protein signaling pathway; intracellular signaling cascade; nervous system development [50]; phosphate metabolism; regulation of neurotransmitter levels; small GTPase mediated signal transduction; system development; ubiquitin cycle

LBP1*

Apoptosis [51]; cellular process; intracellular signaling cascade; protein amino acid phosphorylation; protein kinase cascade

LDSPOLYA

Development; aromatic amino acid family metabolism; intracellular signaling cascade

LEF1TDF1

N/A

LFA1

N/A

MAZ*

Apoptosis; brain development; cell adhesion; cell cycle; cell differentiation; endocytosis; enzyme linked receptor protein signaling pathway; intracellular signaling cascade; muscle development [41]; nervous system development; development [41]; protein amino acid phosphorylation; protein kinase cascade; regulation of actin filament length; small GTPase mediated signal transduction; Wnt receptor signaling

MINI19

N/A

MMEF2

N/A

MYCMAX

Cellular metabolism; macromolecule metabolism

MZF1*

Cell proliferation [52]; cell adhesion; cell cycle; cell differentiation; cell-cell signaling; enzyme linked receptor protein signaling pathway; hemopoiesis [52]; metal ion transport; nervous system development; neurotransmitter secretion; organ development; regulated secretory pathway; regulation of transcription, DNA-dependent; skeletal development; synaptic transmission; Wnt receptor signaling pathway

NFAT*

Immune response [29-31]; homophilic cell adhesion; organ development

NMYC

Cellular physiological process

NRF2*

Organelle organization and biogenesis [42]; cellular physiological process; protein transport

OCT1

Apoptosis; cell-cell adhesion; cellular physiological process; protein transport

OSF2

N/A

PAX4

Cell proliferation; enzyme linked receptor protein signaling pathway; gamma-aminobutyric acid signaling pathway; inflammatory response; programmed cell death; regulation of kinase activity

PIT1

Proteolysis

PU1

Cell adhesion; regulation of kinase activity; regulation of transferase activity

S8*

Development [46]

SP1*

Cell differentiation [53]; cell proliferation [53]; apoptosis [35]; cell adhesion; cell cycle; cell-cell signaling; cellular lipid metabolism; central nervous system development; endocytosis; nervous system development; neurogenesis; nucleocytoplasmic transport; organelle organization and biogenesis; phosphate metabolism; protein kinase cascade; response to endogenous stimulus; Rho protein signal transduction; small GTPase mediated signal transduction; synaptic transmission; transcription from RNA polymerase II promoter; transmembrane receptor protein tyrosine kinase signaling pathway; ubiquitin cycle; vesicle-mediated transport

SRF

N/A

SRY

Cell adhesion; cellular process; intracellular signaling cascade; mRNA processing; organic acid metabolism; response to DNA damage stimulus; RNA metabolism; RNA splicing; steroid metabolism

TBP

Protein transport; establishment of protein localization; RNA processing

TFIII*

Cell adhesion; cell differentiation; cell organization and biogenesis; chromatin modification; enzyme linked receptor protein signaling pathway; intracellular signaling cascade; nervous system development; organ development; protein kinase cascade; protein modification; transcription, DNA-dependent [54]

XVENT1

Cell cycle; cell growth; cell proliferation; cellular biosynthesis; establishment of cellular localization; inflammatory response; innate immune response; intracellular signaling cascade; lipid metabolism; mitochondrion organization and biogenesis; protein complex assembly; protein kinase cascade; response to endogenous stimulus; response to oxidative stress; RNA processing; RNA splicing; secretion; transcription from RNA polymerase II promoter

ZF5*

Actin polymerization and/or depolymerization; cell cycle; cell proliferation; cellular lipid metabolism; endocytosis; enzyme linked receptor protein signaling pathway; endoplasmic reticulum to Golgi vesicle-mediated transport; glycoprotein biosynthesis; hexose metabolism; induction of programmed cell death [47]; intracellular signaling cascade; JNK cascade; MAPKKK cascade; neurogenesis; phospholipid biosynthesis; protein amino acid glycosylation; protein kinase cascade; RNA splicing, via transesterification reactions; small GTPase mediated signal transduction; stress-activated protein kinase signaling pathway; ubiquitin cycle; vesicle-mediated transport; transcription from RNA polymerase II promoter [48]

ZIC3*

Cell adhesion; cell cycle; apoptosis; cell proliferation; cell-cell signaling; chromatin modification; cytoskeleton organization and biogenesis; development [56]; endocytosis; enzyme linked receptor protein signaling pathway; hexose metabolism; MAPKKK cascade; nervous system development; neurogenesis [55]; protein kinase cascade; small GTPase mediated signal transduction; striated muscle development; transmembrane receptor protein tyrosine kinase signaling pathway; vesicle-mediated transport


*TFs have corresponding functions proven by experiments from previous studies. N/A stands for no enriched or conserved biological function categories from this study.

Hu et al. Genome Biology 2007 8:R257   doi:10.1186/gb-2007-8-12-r257

Open Data