|
List of putative ER target genes |
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| Accession number |
Symbol |
Gene name |
Number of time points* |
Gene ontology |
|
|
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| (a) Putative ER target genes that are upregulated (59 out of 89) |
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| AL049265 |
mRNA; cDNA DKFZp564F053 |
14 |
Biological_process unknown [0000004] |
|
| NM_003246 |
THBS1 |
thrombospondin 1 |
13 |
Cell adhesion [0007155] |
| NM_016339 |
Link-GEFII |
Link guanine nucleotide exchange factor II |
13 |
Neurogenesis [0007399] |
| U79299 |
OLFM1 |
Olfactomedin 1 |
13 |
Signal transduction [0007165] |
| AK026062 |
DNAJC1 |
DnaJ (Hsp40) homolog, subfamily C, member 1 |
12 |
Protein folding [0006457] |
| M62403 |
IGFBP4† |
Insulin-like growth factor binding protein 4 |
12 |
Signal transduction [0007165] |
| NM_001089 |
ABCA3† |
ATP-binding cassette, sub-family A (ABC1), member 3 |
12 |
ATP-binding cassette (ABC) transporter [0004009] |
| NM_003714 |
STC2 |
Stanniocalcin 2 |
12 |
Cell-cell signaling [0007267] |
| AF075060 |
Hypothetical protein DKFZp761P0423 |
11 |
Biological_process unknown [0000004] |
|
| AF271070 |
SLC38A1 |
Solute carrier family 38, member 1 |
11 |
Amino acid transport [0006865] |
| AK024639 |
Hypothetical protein FLJ20986 |
11 |
Cation transport [0006812] |
|
| AL080199 |
mRNA; cDNA DKFZp434E082 |
11 |
Biological_process unknown [0000004] |
|
| NM_014365 |
H11 |
Protein kinase H11 |
11 |
Translational regulation, initiation [0006446] |
| AF245389 |
GREB1†‡ |
GREB1 protein |
10 |
High-affinity zinc ion transport [0006830] |
| NM_002894 |
RBBP8† |
Retinoblastoma binding protein 8 |
10 |
DNA repair [0006281] |
| NM_005067 |
SIAH2 |
Seven in absentia homolog 2 (Drosophila) |
10 |
Ubiquitin-dependent protein degradation [0006511] |
| U16752 |
CXCL12† |
Chemokine (C-X-C motif) ligand 12 (stromal cell-derived factor 1) |
10 |
Immune response [0006955] |
| AF086500 |
FZD8 |
Frizzled homolog 8 (Drosophila) |
9 |
Biological_process unknown [0000004] |
| AF176012 |
JDP1 |
J domain containing protein 1 |
9 |
Physiological processes [0007582] |
| AF182416 |
NIF3L1 |
NIF3 NGG1 interacting factor 3-like 1 (S. pombe) |
9 |
DNA methylation [0006306] |
| AK023772 |
Hypothetical protein FLJ13710 |
9 |
Developmental processes [0007275] |
|
| AK024361 |
Hypothetical protein FLJ14299 |
9 |
Transcription regulation [0006355] |
|
| AK025812 |
cDNA: FLJ22159 fis, clone HRC00251, mRNA sequence |
9 |
Biological_process unknown [0000004] |
|
| NM_001037 |
SCN1B |
Sodium channel, voltage-gated, type I, beta polypeptide |
9 |
Sodium transport [0006814] |
| NM_003287 |
TPD52L1 |
Tumor protein D52-like 1 |
9 |
Signal transducer [0004871] |
| NM_003646 |
DGKZ |
Diacylglycerol kinase, zeta 104 kDa |
9 |
Signal transduction [0007165] |
| NM_014333 |
IGSF4 |
Immunoglobulin superfamily, member 4 |
9 |
Virulence [0009406] |
| NM_016300 |
ARPP-21 |
Cyclic AMP-regulated phosphoprotein, 21 kD |
9 |
Biological_process unknown [0000004] |
| AF200341 |
HPYR1 |
Helicobacter pylori responsive 1 |
8 |
Biological_process unknown [0000004] |
| AK023199 |
cDNA FLJ13137 fis, clone NT2RP3003150, mRNA sequence |
8 |
Biological_process unknown [0000004] |
|
| AK025571 |
Hypothetical protein FLJ21918 |
8 |
RNA processing [0006396] |
|
| D00265 |
CYCS |
Cytochrome c, somatic |
8 |
Electron transport [0006118] |
| NM_000926 |
PGR† |
Progesterone receptor |
8 |
Signal transduction [0007165] |
| NM_001634 |
AMD1 |
S-adenosylmethionine decarboxylase 1 |
8 |
Polyamine biosynthesis [0006596] |
| NM_002184 |
IL6ST‡ |
Interleukin 6 signal transducer (gp130, oncostatin M receptor) |
8 |
Signal transduction [0007165] |
| NM_003489 |
NRIP1† |
Nuclear receptor interacting protein 1 |
8 |
Transcription regulation [0006355] |
| NM_004878 |
PTGES |
Prostaglandin E synthase |
8 |
Prostaglandin metabolism [0006693] |
| NM_012111 |
C14orf3 |
Chromosome 14 open reading frame 3 |
8 |
Protein folding [0006457] |
| NM_015878 |
OAZIN |
Ornithine decarboxylase antizyme inhibitor |
8 |
Polyamine biosynthesis [0006596] |
| AK023680 |
PPP1R15B |
Protein phosphatase 1, regulatory (inhibitor) subunit 15B |
7 |
Biological_process unknown [0000004] |
| NM_001909 |
CTSD† |
Cathepsin D (lysosomal aspartyl protease) |
7 |
Proteolysis and peptidolysis [0006508] |
| NM_003774 |
GALNT4 |
UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 4 |
7 |
Biological_process unknown [0000004] |
| NM_014810 |
CAP350 |
Centrosome-associated protein 350 |
7 |
Non-selective vesicle transport [0006899] |
| NM_016391 |
HSPC111 |
Hypothetical protein HSPC111 |
7 |
Leading strand elongation [0006272] |
| AK021773 |
cDNA FLJ11711 fis, clone HEMBA1005152, mRNA sequence |
6 |
Biological_process unknown [0000004] |
|
| AK025766 |
BRI3BP |
BRI3 binding protein |
6 |
Biological_process unknown [0000004] |
| L23401 |
Human repeat region mRNA |
6 |
Biological_process unknown [0000004] |
|
| NM_000427 |
LOR |
Loricrin |
6 |
Cell shape and cell size control [0007148] |
| NM_001932 |
MPP3 |
Membrane protein, palmitoylated 3 (MAGUK p55 subfamily member 3) |
6 |
Signal transduction [0007165] |
| NM_002227 |
JAK1 |
Janus kinase 1 (a protein tyrosine kinase) |
6 |
Protein phosphorylation [0006468] |
| NM_006392 |
NOL5A |
Nucleolar protein 5A (56 kDa with KKE/D repeat) |
6 |
Transcription [0006350] |
| NM_006796 |
AFG3L2 |
AFG3 ATPase family gene 3-like 2 (yeast) |
6 |
Biological_process unknown [0000004] |
| NM_013324 |
CISH |
Cytokine inducible SH2-containing protein |
6 |
JAK-STAT cascade [0007259] |
| NM_016233 |
PADI3 |
Peptidyl arginine deiminase, type III |
6 |
Protein modification [0006464] |
| NM_020120 |
UGCGL1 |
UDP-glucose ceramide glucosyltransferase-like 1 |
6 |
Protein modification [0006464] |
| AB037842 |
KIAA1421‡ |
KIAA1421 protein |
5 |
RNA dependent DNA replication [0006278] |
| NM_001116 |
ADCY9 |
Adenylate cyclase 9 |
5 |
Signal transduction [0007165] |
| NM_014121 |
PRO0233 protein |
5 |
Double-strand break repair [0006303] |
|
| NM_018053 |
Hypothetical protein FLJ10307 |
5 |
Cell death [0008219] |
|
| (b) Putative ER target genes that are downregulated (30 out of 89) |
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| NM_012342 |
NMA† |
Putative transmembrane protein |
13 |
Melanin biosynthesis from tyrosine [0006583] |
| AF039944 |
NDRG1 |
N-myc downstream regulated gene 1 |
11 |
Biological_process unknown [0000004] |
| AL049471 |
mRNA; cDNA DKFZp586N012 |
11 |
Biological_process unknown [0000004] |
|
| AK024964 |
NFIA |
Nuclear factor I/A |
9 |
DNA replication [0006260] |
| M16006 |
SERPINE1 |
Serine (or cysteine) proteinase inhibitor, clade E, member 1 |
9 |
Acute-phase response [0006953] |
| NM_004438 |
EPHA4 |
EphA4 |
9 |
Signal transduction [0007165] |
| NM_006449 |
CDC42EP3 |
CDC42 effector protein (Rho GTPase binding) 3 |
9 |
Signal transduction [0007165] |
| AK026298 |
NMES1 |
Normal mucosa of esophagus specific 1 |
8 |
Biological_process unknown [0000004] |
| D16875 |
Human HepG2 3' region cDNA, clone hmd1f06, mRNA sequence |
8 |
Biological_process unknown [0000004] |
|
| NM_002237 |
KCNG1 |
Potassium voltage-gated channel, subfamily G, member 1 |
8 |
Potassium transport [0006813] |
| NM_003032 |
SIAT1 |
Sialyltransferase 1 (beta-galactoside alpha-2,6-sialytransferase) |
8 |
Protein modification [0006464] |
| NM_006605 |
RFPL2 |
Ret finger protein-like 2 |
8 |
Protein binding [0005515] |
| AK025922 |
Hypothetical protein FLJ22269 |
7 |
Developmental processes [0007275] |
|
| NM_000504 |
F10 |
Coagulation factor X |
7 |
Proteolysis and peptidolysis [0006508] |
| NM_001139 |
ALOX12B |
Arachidonate 12-lipoxygenase, 12R type |
7 |
Epidermal differentiation [0008544] |
| NM_004354 |
CCNG2 |
Cyclin G2 |
7 |
Cell cycle checkpoint [0000075] |
| NM_006137 |
CD7 |
CD7 antigen (p41) |
7 |
Humoral defense mechanism [0006959] |
| NM_007273 |
REA‡ |
Repressor of estrogen receptor activity |
7 |
Negative control of cell proliferation [0008285] |
| NM_014583 |
LMCD1 |
LIM and cysteine-rich domains 1 |
7 |
Transcription factor [0003700] |
| NM_017572 |
MKNK2 |
MAP kinase-interacting serine/threonine kinase 2 |
7 |
Protein phosphorylation [0006468] |
| D49356 |
Human mRNA (S100C-related gene) |
6 |
Cell cycle [0007049] |
|
| NM_001878 |
CRABP2 |
Cellular retinoic acid binding protein 2 |
6 |
Signal transduction [0007165] |
| NM_004388 |
CTBS |
Chitobiase, di-N-acetyl- |
6 |
Carbohydrate metabolism [0005975] |
| NM_006622 |
SNK |
serum-inducible kinase |
6 |
Protein phosphorylation [0006468] |
| AK022072 |
cDNA FLJ12010 fis, clone HEMBB1001635, mRNA sequence |
5 |
Biological_process unknown [0000004] |
|
| AL137529 |
Hypothetical protein FLJ23751 |
5 |
Lipid metabolism [0006629] |
|
| NM_000430 |
PAFAH1B1 |
Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45 kDa |
5 |
Signal transduction [0007165] |
| NM_013332 |
HIG2 |
Hypoxia-inducible protein 2 |
5 |
Biological_process unknown [0000004] |
| NM_014770 |
CENTG1 |
Centaurin, gamma 1 |
5 |
Cell growth and/or maintenance [0008151] |
| NM_001719 |
BMP7† |
Bone morphogenetic protein 7 (osteogenic protein 1) |
4 |
Cell growth and/or maintenance [0008151] |
|
*Number of time points that met the 1.2-fold change in the same direction selection criteria. †Genes in bold have previously been shown to be direct targets in other ER+ breast tumor cell lines (ZR75-1 and/or MCF-7). ‡CHX treatments alone had agonistic effects on these genes; therefore their CHX sensitivity in the presence of E2 is unclear. | ||||
Lin et al. Genome Biology 2004 5:R66 doi:10.1186/gb-2004-5-9-r66 |
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