Table 1. Functional classification of target genes bound by ERα in MCF-7 cells in the presence of estradiol.
| Gene | Description |
|---|---|
| Apoptosis | |
| CASP7 | Caspase 7 |
| IKBKG | Inhibitor of κ light polypeptide gene enhancer in B cells, kinase γ |
| Carbohydrate metabolism | |
| GLT25D2 | Glycosyltransferase 25 domain-containing 2 |
| HK1 | Hexokinase 1 |
| MDH1 | Malate dehydrogenase 1, NAD |
| Cell adhesion | |
| ANXA6 | Annexin A6 |
| ANXA9 | Annexin A9 |
| COL5A3 | Collagen, type V, α3 |
| NINJ2 | Ninjurin 2 |
| Cell-cell signaling | |
| CTNNBIP1 | Catenin, β interacting protein 1 |
| SEMA3B | Sema domain, Ig domain, short basic domain, secreted, (semaphorin) |
| WISP2 | WNT1 inducible signaling pathway protein 2 |
| WNT16 | Wingless-type MMTV integration site family, member 16 |
| Cell growth/maintenance | |
| CHPT1 | Choline phosphotransferase 1 |
| EPS8 | Epidermal growth factor receptor pathway substrate 8 |
| PRCC | Papillary renal cell carcinoma |
| SEL1L | Sel-1 suppressor of lin-12-like (C. elegans) |
| TBC1D3 | TBC1 domain family, member 3 |
| Cell motility | |
| CRKL | v-crk sarcoma virus CT10 oncogene homolog |
| Cell cycle | |
| ARKRD15 | Ankyrin repeat domain 15 |
| BANP | BTG3 associated nuclear protein |
| CDK5 | Cyclin-dependent kinase 5 |
| RBL2 | Retinoblastoma-like 2 (p130) |
| TUSC4 | Tumor suppressor candidate 4 |
| Chromosome biogenesis | |
| SMYD3 | SET and MYND domain-containing 3 |
| Co-enzyme metabolism | |
| COQ4 | Coenzyme Q4 homolog (yeast) |
| MOCS2 | Molybdenum cofactor synthesis 2 |
| Cytoskeleton | |
| FGD3 | FYVE, RhoGEF, and PH domain-containing 3 |
| KRT13 | Keratin 13 |
| SPTBN4 | Spectrin, β, non-erythrocytic 4 |
| TTID | Titin immunoglobulin domain protein (myotilin) |
| TNS | Tensin |
| Defense response | |
| LY6E | Lymphocyte antigen 6 complex, locus E |
| PGLYRP2 | Peptidoglycan recognition protein 2 |
| TFF1 | Trefoil factor 1 |
| TFF3 | Trefoil factor 3 |
| DNA repair | |
| RECQL4 | RecQ protein-like 4 |
| Immune response | |
| IL-20 | IL-20 |
| Lipid metabolism | |
| ALDH3B2 | Aldehyde dehydrogenase 3 family, member B2 |
| PAFAH2 | Platelet-activating factor acetylhydrolase 2, 40 kDa |
| PCYTIA | Phosphate cytidylyltransferase 1, choline, α isoform |
| Protein metabolism and modification | |
| AHSA1 | HA1, activator of heat shock 90-kDa protein ATPase homolog 1 |
| B3Gn-T6 | β-1,3-N-acetylglucosaminyl transferase protein |
| CST5 | Cystatin D |
| FBXO33 | F-box protein 33 |
| H11 | Protein kinase H11 |
| HSPH1 | Heat shock 105-dKa/110-kDa protein 1 |
| PKIB | Protein kinase (cAMP-dependent, catalytic) inhibitor β |
| RPS6KL1 | Ribosomal protein S6 kinase-like 1 |
| TIPARP | TCDD-inducible poly(ADP-ribose) polymerase |
| TMPRSS3 | Transmembrane protease, serine 3 |
| RNA processing | |
| DDX23 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 23 |
| PRPF31 | Pre-mRNA processing factor 31 homolog (yeast) |
| QTRTD1 | Queuine tRNA-ribosyltransferase domain-containing 1 |
| THOC3 | THO complex 3 Signal transduction |
| P2RY6 | Pyrimidinergic receptor P2Y, G protein-coupled, 6 |
| Steroid and drug metabolism | |
| BAAT | Bile acid CoA:amino acid N-acyltransferase (glycine N-choloyltransferase) |
| CYP1B1 | Cytochrome P450, family 1, subfamily B, polypeptide 1 |
| CYP4F3 | Cytochrome P450, family 4, subfamily F, polypeptide 3 |
| CYP4F11 | Cytochrome P450, family 4, subfamily F, polypeptide 11 |
| STS | Steroid sulfatase, arylsulfatase C, isozyme S |
| UGT2B15 | UDP glycosyltransferase 2 family, polypeptide B15 |
| UGT2B17 | UDP glycosyltransferase 2 family, polypeptide B17 |
| Transcriptional regulator | |
| CARP | Cardiac ankyrin repeat protein |
| ESR1 | Estrogen receptor 1 |
| FLJ20097 | Hypothetical protein FLJ20097 |
| FOXA1 | Forkhead box A1 |
| NR0B2 | Nuclear receptor subfamily 0, group B, member 2 |
| PHF15 | PHD finger protein 15 |
| PPRC1 | PPAR, γ, coactivator-related 1 |
| PROP1 | Prophet of Pit1, paired-like Hox transcription factor |
| TRIM16 | Tripartite motif-containing 16 |
| ZNF140 | Zinc finger protein 140 |
| ZNF302 | Zinc finger protein 302 |
| ZNF485 | Zinc finger protein 485 |
| Transport | |
| ABCA3 | ATP-binding cassette, sub-family A (ABC1), member 3 |
| ABCC5 | ATP-binding cassette, sub-family C (CFTR/MRP), member |
| ABCC11 | ATP-binding cassette, sub-family C (CFTR/MRP), member |
| ABCG2 | ATP-binding cassette, sub-family G (WHITE), member 2 |
| DSCR3 | Down syndrome critical region gene 3 |
| NDUFA2 | NADH dehydrogenase 1 α subcomplex, 2 |
| NDUFB9 | NADH dehydrogenase 1 β subcomplex, 9 |
| P2RX7 | Purinergic receptor P2X, ligand-gated ion channel, 7 |
| PDZK1 | PDZ domain-containing 1 |
| PKD212 | Polycystic kidney disease 2-like 2 |
| RAB7L1 | RAB7, member RAS oncogene family-like 1 |
| SLC7A3 | Solute carrier family 7, member 3 |
| SLC9A8 | Solute carrier family 9 (sodium/hydrogen exchanger), isoform |
| SLC25A36 | Solute carrier family 25, member 36 |
| SLC27A2 | Solute carrier family 27, member 2 |
| SYT12 | Synaptotagmin XII |
| UCRC | Ubiquinol-cytochrome c reductase complex (7.2 kDa) |
| ZFYVE1 | Zinc finger, FYVE domain-containing |
Genes without an assigned function at this level of analysis: C9orf11, C14orf61, C14orf133, C20orf172, CBWD2, CHD1L, CYB561D2, DKFZp434B-1272, DKFZp547E1912, DKFZP5641122, DKFZP566J2046, DNC12, DOC1, Eny2, FAHD1, FAM3C, FEM1A, FLJ10871, FLJ11267, FLJ13710, FLJ20094, FLJ20772, FLJ31882, FLJ33761, FLJ33868, GREB1, HAGH, HSPC138, IGSF3, INVS, KIAA1536, KSP37, LOC90668, LOC114926, MDH1, MDS025, MGC8902, MGC10200, MGC11242, MGC26694, MGC35361, MGC47799, MR-1, MSMB, NALP6, NAV3, NUDCD1, PRUNE, RGN, S100A10, SCGB1D2, SMAP, SMILE, TFPT, TRIM51, TSNAX1P1, TSSC4, VEPH1, Y1F1B, ZMAT5. In the case that one locus could be assigned to two distinct genes, both genes were included in the analysis.