|
Functional grouping of genes differentially expressed between signature and non-signature IFNs |
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| GENENAME |
GENE DEESCRIPTION |
LOCUSLINK CLASSIFICATIONS |
UNIQID |
LOCUSLINK |
|
|
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| 1)Metabolism/protein metabolism |
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| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
ATP binding; DNA damage response, signal transduction resulting in cell cycle arrest; MAP kinase kinase kinase activity; activation of JUNK; activation of MAP/ERK kinase kinase; activation of MAPKK; cell cycle arrest; cell death; cell differentiation; cell proliferation; cellular_component unknown; protein amino acid phosphorylation; protein serine/threonine kinase activity; protein-tyrosine kinase activity; response to radiation; response to stress; transferase activity |
Hs.115175 |
51776 |
| MMP9 |
matrix metalloproteinase 9 (gelatinase B, 92 kDa gelatinase, 92 kDa type IV collagenase) |
collagen catabolism; collagenase activity; extracellular matrix; extracellular space; gelatinase B activity; hydrolase activity; zinc ion binding |
Hs.151738 |
4318 |
| GAPD |
glyceraldehyde-3-phosphate dehydrogenase |
cytoplasm; glucose metabolism; glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity; glycolysis; oxidoreductase activity |
Hs.169476 |
2597 |
| PRKRIR |
protein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor) |
DNA binding; negative regulation of cell proliferation; protein binding; regulation of translation; response to stress; signal transduction |
Hs.177574 |
5612 |
| SRP14 |
signal recognition particle 14 kDa (homologous Alu RNA binding protein) |
7S RNA binding; cotranslational membrane targeting; protein targeting; signal recognition particle |
Hs.180394 |
6727 |
| MALT1 |
mucosa associated lymphoid tissue lymphoma translocation gene 1 |
activation of NF-kappaB-inducing kinase; anti-apoptosis; caspase activity; defense response; intracellular; peptidase activity; protein binding; proteolysis and peptidolysis; signal transduction |
Hs.180566 |
10892 |
| PSMA7 |
proteasome (prosome, macropain) subunit, alpha type, 7 |
endopeptidase activity; proteasome core complex (sensu Eukarya); ubiquitin-dependent protein catabolism |
Hs.233952 |
5688 |
| PSMA3 * |
proteasome (prosome, macropain) subunit, alpha type, 7 |
endopeptidase activity; proteasome core complex (sensu Eukarya); ubiquitin-dependent protein catabolism |
Hs.346918 |
5684 |
| LYZ |
lysozyme (renal amyloidosis) |
carbohydrate metabolism; cell wall catabolism; cytolysis; defense response to bacteria; extracellular space; hydrolase activity, acting on glycosyl bonds; inflammatory response; lysozyme activity |
Hs.234734 |
4069 |
| MAFG |
v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian) |
chromatin; nucleus; regulation of transcription, DNA-dependent; transcription factor activity; transcription from Pol II promoter |
Hs.252229 |
4097 |
| NRBP |
nuclear receptor binding protein |
ATP binding; SH3/SH2 adaptor protein activity; nucleus; protein amino acid phosphorylation; protein kinase activity; receptor activity; signal transduction; transferase activity |
Hs.272736 |
29959 |
| SCAND1 |
SCAN domain containing 1 |
RNA binding; nucleus; protein self binding; regulation of cell cycle; regulation of cell proliferation; regulation of transcription, DNA-dependent; transcription factor activity; transcription factor binding |
Hs.274411 |
51282 |
| EEF1D |
eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) |
eukaryotic translation elongation factor 1 complex; guanyl-nucleotide exchange factor activity; protein biosynthesis; translation elongation factor activity; translational elongation |
Hs.334798 |
1936 |
| NQO1 |
NAD(P)H dehydrogenase, quinone 1 |
NAD(P)H dehydrogenase (quinone) activity; cytochrome-b5 reductase activity; cytoplasm; electron transport; nitric oxide biosynthesis; oxidoreductase activity; response to toxin; synaptic transmission, cholinergic; xenobiotic metabolism |
Hs.406515 |
1728 |
| FABP5 |
fatty acid binding protein 5 (psoriasis-associated) |
cytoplasm; epidermal differentiation; fatty acid binding; lipid metabolism; transport; transporter activity |
Hs.408061 |
2171 |
| S100A11 |
S100 calcium binding protein A11 (calgizzarin) |
calcium ion binding; cytoplasm; negative regulation of DNA replication; negative regulation of cell proliferation; nucleus |
Hs.417004 |
6282 |
| DIS155E |
NRAS-related gene |
DNA binding; RNA binding; male gonad development; regulation of transcription, DNA-dependent |
Hs.69855 |
7812 |
| TAL1 |
T-cell acute lymphocytic leukemia 1 |
DNA binding; cell differentiation; cell proliferation; regulation of transcription, DNA-dependent |
Hs.73828 |
6886 |
| PTPRN2 |
protein tyrosine phosphatase, receptor type, N polypeptide 2 |
hydrolase activity; integral to plasma membrane; protein amino acid dephosphorylation; protein-tyrosine-phosphatase activity; receptor activity; transmembrane receptor protein tyrosine phosphatase activity |
Hs.74624 |
5799 |
| FKBP4 |
FK506 binding protein 4, 59 kDa |
FK506 binding; Hsp70/Hsp90 organizing protein activity; biological_process unknown; cytoplasm; isomerase activity; nucleus; peptidyl-prolyl cis-trans isomerase activity; protein folding |
Hs.848 |
2288 |
| LIPA |
lipase A, lysosomal acid, cholesterol esterase (Wolman disease) |
N-linked glycosylation; hydrolase activity; lipid catabolism; lipoprotein lipase activity; lysosome; sterol esterase activity |
Hs.85226 |
3988 |
| ATF5 |
activating transcription factor 5 |
DNA binding; RNA polymerase II transcription factor activity; nucleus; regulation of cell cycle; regulation of transcription from Pol II promoter; transcription corepressor activity |
Hs.9754 |
22809 |
| CD63* |
lysosomal membrane glycoprotein |
CD63 serves as an adaptor protein that links its interaction partners to the endocytic machinery of the cell/trafficking role |
Hs.445570 |
29186 |
| LAMR1 |
laminin receptor 1 (ribosomal protein SA, 67 kDa) |
cell adhesion; cell surface receptor linked signal transduction; cytosolic small ribosomal subunit (sensu Eukarya); integrin complex; intracellular; laminin receptor activity; protein biosynthesis; regulation of translation; structural constituent of ribosome |
Hs.181357 |
3921 |
| 2) Catalytic activity/hydrolase activity |
||||
| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| MMP9 |
matrix metalloproteinase 9 (gelatinase B, 92 kDa gelatinase, 92 kDa type IV collagenase) |
(See description above) |
Hs.151738 |
4318 |
| GAPD |
glyceraldehyde-3-phosphate dehydrogenase |
(See description above) |
Hs.169476 |
2597 |
| MALT1 |
mucosa associated lymphoid tissue lymphoma translocation gene 1 |
(See description above) |
Hs.180566 |
10892 |
| PSMA7 |
proteasome (prosome, macropain) subunit, alpha type, 7 |
(See description above) |
Hs.233952 |
5688 |
| PSMA3 * |
proteasome (prosome, macropain) subunit, alpha type, 7 |
(See description above) |
Hs.346918 |
5684 |
| LYZ |
lysozyme (renal amyloidosis) |
(See description above) |
Hs.234734 |
4069 |
| NRBP |
nuclear receptor binding protein |
(See description above) |
Hs.272736 |
29959 |
| FLJ12671 |
hypothetical protein FLJ12671 |
exonuclease activity; hydrolase activity; nucleus |
Hs.301904 |
81875 |
| NQO1 |
NAD(P)H dehydrogenase, quinone 1 |
(See description above) |
Hs.406515 |
1728 |
| PTPRN2 |
protein tyrosine phosphatase, receptor type, N polypeptide 2 |
(See description above) |
Hs.74624 |
5799 |
| FKBP4 |
FK506 binding protein 4, 59 kDa |
(See description above) |
Hs.848 |
2288 |
| LIPA |
lipase A, lysosomal acid, cholesterol esterase (Wolman disease) |
(See description above) |
Hs.85226 |
3988 |
| 3) Cell proliferation |
||||
| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| PRKRIR |
protein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor) |
(See description above) |
Hs.177574 |
5612 |
| SCAND1 |
SCAN domain containing 1 |
(See description above) |
Hs.274411 |
51282 |
| H41 |
hypothetical protein H41 |
cell proliferation; cellular_component unknown; molecular_function unknown |
Hs.283690 |
55573 |
| S100A11 |
S100 calcium binding protein A11 (calgizzarin) |
(See description above) |
Hs.417004 |
6282 |
| CD164 |
CD164 antigen, sialomucin |
cell adhesion; development; endosome; hemopoiesis; immune response; integral to plasma membrane; membrane fraction; negative regulation of cell adhesion; negative regulation of cell proliferation; signal transduction; soluble fraction |
Hs.43910 |
8763 |
| TAL1 |
T-cell acute lymphocytic leukemia 1 |
(See description above) |
Hs.73828 |
6886 |
| ATF5 |
activating transcription factor 5 |
(See description above) |
Hs.9754 |
22809 |
| IL-6 |
Interleukin 6 |
reactants also involved in the regulation of immune response, hematopoiesis, platelet production, acute phase reaction and bone resorption (susceptibility factor for osteopenia), playing a role in the aggressiveness of non hodgkin lymphoma by stimulating MMP2 and MMP9 |
Hs.512234 |
3569 |
| 4) Cell growth and maintanance |
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| SCA7 |
spinocerebellar ataxia 7 (olivopontocerebellar atrophy with retinal degeneration) |
molecular_function unknown; nuclear organization and biogenesis; nucleus; visual perception |
Hs.108447 |
6314 |
| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| TIP47 |
mannose-6-phosphate receptor binding protein 1 |
Golgi apparatus; endosome; receptor activity; vesicle-mediated transport |
Hs.140452 |
10226 |
| PRKRIR |
protein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor) |
(See description above) |
Hs.177574 |
5612 |
| SRP14 |
signal recognition particle 14 kDa (homologous Alu RNA binding protein) |
(See description above) |
Hs.180394 |
6727 |
| TUBB5 |
tubulin beta MGC4083 |
GTP binding; microtubule; microtubule-based movement; structural molecule activity |
Hs.274398 |
84617 |
| SCAND1 |
SCAN domain containing 1 |
(See description above) |
Hs.274411 |
51282 |
| H41 |
hypothetical protein H41 |
(See description above) |
Hs.283690 |
55573 |
| FABP5 |
fatty acid binding protein 5 (psoriasis-associated) |
(See description above) |
Hs.408061 |
2171 |
| S100A11 |
S100 calcium binding protein A11 (calgizzarin) |
(See description above) |
Hs.417004 |
6282 |
| CD164 |
CD164 antigen, sialomucin |
(See description above) |
Hs.43910 |
8763 |
| CCL1 |
chemokine (C-C motif) ligand 1 |
calcium ion homeostasis; cell-cell signaling; chemokine activity; chemotaxis; extracellular space; immune response; inflammatory response; signal transduction; viral life cycle |
Hs.72918 |
6346 |
| TAL1 |
T-cell acute lymphocytic leukemia 1 |
(See description above) |
Hs.73828 |
6886 |
| ATF5 |
activating transcription factor 5 |
(See description above) |
Hs.9754 |
22809 |
| 5) Cell cycle |
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| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| SCAND1 |
SCAN domain containing 1 |
(See description above) |
Hs.274411 |
51282 |
| S100A11 |
S100 calcium binding protein A11 (calgizzarin) |
(See description above) |
Hs.417004 |
6282 |
| ATF5 |
activating transcription factor 5 |
(See description above) |
Hs.9754 |
22809 |
| 6) Regulation of transcription |
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| MAFG |
v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian) |
chromatin; nucleus; regulation of transcription, DNA-dependent; transcription factor activity; transcription from Pol II promoter |
Hs.252229 |
4097 |
| SCAND1 |
SCAN domain containing 1 |
(See description above) |
Hs.274411 |
51282 |
| D1S155E |
NRAS-related gene |
(See description above) |
Hs.69855 |
7812 |
| TAL1 |
T-cell acute lymphocytic leukemia 1 |
(See description above) |
Hs.73828 |
6886 |
| ATF5 |
activating transcription factor 5 |
(See description above) |
Hs.9754 |
22809 |
| 7) Nucleotide binding |
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| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| KIFC3 |
kinesin family member C3 |
ATP binding; microtubule associated complex; motor activity |
Hs.23131 |
3801 |
| NRBP |
nuclear receptor binding protein |
(See description above) |
Hs.272736 |
29959 |
| TUBB-5 |
tubulin beta MGC4083 |
(See description above) |
Hs.274398 |
84617 |
| 8)Nucleobase nucleoside and nucleic acid metabolism |
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| MAFG |
v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian) |
(See description above) |
Hs.252229 |
4097 |
| SCAND1 |
SCAN domain containing 1 |
(See description above) |
Hs.274411 |
51282 |
| S100A11 |
S100 calcium binding protein A11 (calgizzarin) |
(See description above) |
Hs.417004 |
6282 |
| D1S155E |
NRAS-related gene |
(See description above) |
Hs.69855 |
7812 |
| TAL-1 |
T-cell acute lymphocytic leukemia 1 |
(See description above) |
Hs.73828 |
6886 |
| ATF-5 |
activating transcription factor 5 |
(See description above) |
Hs.9754 |
22809 |
| 9) Signal transducer activity |
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| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| TIP47 |
mannose-6-phosphate receptor binding protein 1 |
Golgi apparatus; endosome; receptor activity; vesicle-mediated transport |
Hs.140452 |
10226 |
| NRBP |
nuclear receptor binding protein |
(See description above) |
Hs.272736 |
29959 |
| CCR1 |
chemokine (C-C motif) receptor 1 |
C-C chemokine receptor activity; G-protein signaling, coupled to cyclic nucleotide second messenger; cell adhesion; cell-cell signaling; chemotaxis; cytosolic calcium ion concentration elevation; immune response; inflammatory response; integral to plasma membrane; rhodopsin-like receptor activity |
Hs.301921 |
1230 |
| CCL1 |
chemokine (C-C motif) ligand 1 |
calcium ion homeostasis; cell-cell signaling; chemokine activity; chemotaxis; extracellular space; immune response; inflammatory response; signal transduction; viral life cycle |
Hs.72918 |
6346 |
| PTPRN2 |
protein tyrosine phosphatase, receptor type, N polypeptide 2 |
hydrolase activity; integral to plasma membrane; protein amino acid dephosphorylation; protein-tyrosine-phosphatase activity; receptor activity; transmembrane receptor protein tyrosine phosphatase activity |
Hs.74624 |
5799 |
| 10) Immune response/ defence |
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| CD2BP2 |
CD2 antigen (cytoplasmic tail) binding protein 2 |
antimicrobial humoral response (sensu Vertebrata); cytoplasm |
Hs.202677 |
10421 |
| LYZ |
lysozyme (renal amyloidosis) |
(See description above) |
Hs.234734 |
4069 |
| CCR1 |
chemokine (C-C motif) receptor 1 |
(See description above) |
Hs.301921 |
1230 |
| CD164 |
CD164 antigen, sialomucin |
(See description above) |
Hs.43910 |
8763 |
| CCL1 |
chemokine (C-C motif) ligand 1 |
(See description above) |
Hs.72918 |
6346 |
| MALT1 |
mucosa associated lymphoid tissue lymphoma translocation gene 1 |
activation of NF-kappaB-inducing kinase; anti-apoptosis; caspase activity; defense response; intracellular; peptidase activity; protein binding; proteolysis and peptidolysis; signal transduction |
Hs.180566 |
10892 |
| NKG7* |
Natural killer cell group 7 sequence |
Expressed in activated T cells, alpha LAK cells in kidney, liver, lung and pancreas. Not expressed in brain, heart, or skeletal muscle. Expressed at high levels in TCR gamma delta-expressing CTL clones, and in some TCR alpha beta-expressing CTL clones (both CD4+ and CD8+), but is not expressed in other TCR alpha beta-expressing CTL clones and in cell lines representing Bcells, monocytes, and myeloid cells |
Hs.10306 |
4818 |
| NKTR* |
NK cell tumor recognition protein |
Activation of NK cell eleveted levels upon recognition of tumors by NK |
Hs.432885 |
4820 |
| MPEG1* |
likely ortholog of mouse macrophage expressed gene 1 |
Mpg-1 is a novel gene that may share a distant ancestry to perforin, a lytic protein found in cytotoxic T lymphocytes and natural killer cells |
Hs.549280 |
219972 |
| CCL3L1* |
chemokine (C-C motif) ligand 3-like 1 |
chemokine activity; chemotaxis; extracellular; immune response; inflammatory response; negative regulation of cell proliferation |
Hs.387650 |
6349 |
| IL-6 |
Interleukin 6 |
(See description above) |
Hs.512234 |
3569 |
| 11) Cell adhesion |
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| CCR1 |
chemokine (C-C motif) receptor 1 |
(See description above) |
Hs.301921 |
1230 |
| CD164 |
CD164 antigen, sialomucin |
(See description above) |
Hs.43910 |
8763 |
| FKBP4 |
uncharacterized hematopoietic stem/progenitor cells protein MDS028 |
cell-matrix adhesion; integrin complex |
Hs.848 |
55846 |
| LAMR1* |
laminin receptor 1 (ribosomal protein SA, 67 kDa) |
(See description above) |
Hs.181357 |
3921 |
| ICAM3* |
intracellular adhesion molecule 3 |
cell-cell adhesion; integral to plasma membrane; integrin binding; protein binding |
Hs.99995 |
3385 |
| 12) Development |
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| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| FABP5 |
fatty acid binding protein 5 (psoriasis-associated) |
cytoplasm; epidermal differentiation; fatty acid binding; lipid metabolism; transport; transporter activity |
Hs.408061 |
2171 |
| KRT5 |
keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types) |
epidermal differentiation; intermediate filament; structural constituent of cytoskeleton |
Hs.433845 |
3852 |
| CD164 |
CD164 antigen, sialomucin |
(See description above) |
Hs.43910 |
8763 |
| D1F155E |
NRAS-related gene |
(See description above) |
Hs.69855 |
7812 |
| TAL1 |
T-cell acute lymphocytic leukemia 1 |
(See description above) |
Hs.73828 |
6886 |
| 13) Biosynthesis regulation of translation |
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| PRKRIR |
protein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor) |
(See description above) |
Hs.177574 |
5612 |
| EEF1D |
eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) |
(See description above) |
Hs.334798 |
1936 |
| NQO1 |
NAD(P)H dehydrogenase, quinone 1 |
(See description above) |
Hs.406515 |
1728 |
| LIPA |
lipase A, lysosomal acid, cholesterol esterase (Wolman disease) |
N-linked glycosylation; hydrolase activity; lipid catabolism; lipoprotein lipase activity; lysosome; sterol esterase activity |
Hs.85226 |
3988 |
| LAMR1 |
laminin receptor 1 (ribosomal protein SA, 67 kDa) |
(See description above) |
Hs.181357 |
3921 |
| EEF2* |
eukaryotic translation elongation factor 2 |
translational elongation, GTP binding translation elongation factor activity, protein biosynthesis |
Hs.75309 |
1938 |
| EIF5A* |
eukaryotic translation initiation factor 5A |
regulation of translational initiation, nucleic acid binding, translation initiation factor activity, cytoplasm, viral genome replication, protein biosynthesis, translational initiation |
Hs.534314 |
1984 |
| 14)Cytoskeleton |
||||
| KFC3 |
kinesin family member C3 |
ATP binding; microtubule associated complex; motor activity |
Hs.23131 |
3801 |
| TUBB-5 |
tubulin beta MGC4083 |
(See description above) |
Hs.274398 |
84617 |
| KRT5 |
keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types) |
epidermal differentiation; intermediate filament; structural constituent of cytoskeleton |
Hs.433845 |
3852 |
| 15)Transport |
||||
| TIP47 |
mannose-6-phosphate receptor binding protein 1 |
(See description above) |
Hs.140452 |
10226 |
| SRP14 |
signal recognition particle 14 kDa (homologous Alu RNA binding protein) |
(See description above) |
Hs.180394 |
6727 |
| TUBB-5 |
tubulin beta MGC4083 |
(See description above) |
Hs.274398 |
84617 |
| FABP5 |
fatty acid binding protein 5 (psoriasis-associated) |
(See description above) |
Hs.408061 |
2171 |
| 16) Cell Death |
||||
| ZAK |
sterile alpha motif and leucine zipper containing kinase AZK |
(See description above) |
Hs.115175 |
51776 |
| MALT1 |
mucosa associated lymphoid tissue lymphoma translocation gene 1 |
(See description above) |
Hs.180566 |
10892 |
| LYZ |
lysozyme (renal amyloidosis) |
(See description above) |
Hs.234734 |
4069 |
|
Genes in blue rectangles are up-regulated in MP stimulated by "signature IFNs" (and down-regulated in non-signature interferons). Genes in orange rectangles are up-regulated in MP stimulated by non-signature IFN (and downregulated in signature interferons). Genes belonging to more than one functional group may represent central and shared switches in pathways directly influenced by IFNs' activity. Genes in torqoise characters did not classify in any of the categories mined by DAVID software (PSMA3, NKTR, NKG7, CD63, EEF2) and were manually entered in the appropriate group on the basis of Entrez cross database annotation and Genecard http://www.ncbi.nlm.nih.gov/Entrez; http://bioinfo.weizmann.ac.il/cards/index.shtml | ||||
Stroncek et al. Journal of Translational Medicine 2005 3:24 doi:10.1186/1479-5876-3-24 |
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