{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,23]],"date-time":"2026-10-23T02:59:15Z","timestamp":1792724355510,"version":"4.5.0"},"reference-count":86,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2013,6,18]],"date-time":"2013-06-18T00:00:00Z","timestamp":1371513600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-sa\/3.0\/"},{"start":{"date-parts":[[2013,6,18]],"date-time":"2013-06-18T00:00:00Z","timestamp":1371513600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-sa\/3.0\/"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Mol Syst Biol"],"published-print":{"date-parts":[[2013,6,18]]},"DOI":"10.1038\/msb.2013.28","type":"journal-article","created":{"date-parts":[[2013,6,18]],"date-time":"2013-06-18T06:12:57Z","timestamp":1371535977000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":81,"title":["Integrative genomics of gene and metabolic regulation by estrogen receptors \u03b1 and \u03b2, and their coregulators"],"prefix":"10.1038","volume":"9","author":[{"given":"Zeynep","family":"Madak\u2010Erdogan","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tze\u2010Howe","family":"Charn","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yan","family":"Jiang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Edison T","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"John A","family":"Katzenellenbogen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Benita S","family":"Katzenellenbogen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2013,6,18]]},"reference":[{"key":"BFMSB201328_CR1","doi-asserted-by":"crossref","first-page":"271","DOI":"10.1023\/A:1009594727358","volume":"5","author":"S Ali","year":"2000","unstructured":"Ali S, Coombes RC (2000) Estrogen receptor alpha in human breast cancer: occurrence and significance. J Mammary Gland Biol Neoplasia 5: 271\u2013281","journal-title":"J Mammary Gland Biol Neoplasia"},{"key":"BFMSB201328_CR2","doi-asserted-by":"crossref","first-page":"965","DOI":"10.1126\/science.277.5328.965","volume":"277","author":"SL Anzick","year":"1997","unstructured":"Anzick SL, Kononen J, Walker RL, Azorsa DO, Tanner MM, Guan XY, Sauter G, Kallioniemi OP, Trent JM, Meltzer PS (1997) AIB1, a steroid receptor coactivator amplified in breast and ovarian cancer. Science 277: 965\u2013968","journal-title":"Science"},{"key":"BFMSB201328_CR3","doi-asserted-by":"crossref","first-page":"1338","DOI":"10.1124\/mol.105.017376","volume":"69","author":"P Augereau","year":"2006","unstructured":"Augereau P, Badia E, Fuentes M, Rabenoelina F, Corniou M, Derocq D, Balaguer P, Cavailles V (2006) Transcriptional regulation of the human NRIP1\/RIP140 gene by estrogen is modulated by dioxin signalling. Mol Pharmacol 69: 1338\u20131346","journal-title":"Mol Pharmacol"},{"key":"BFMSB201328_CR4","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1023\/A:1012972808558","volume":"70","author":"DO Azorsa","year":"2001","unstructured":"Azorsa DO, Cunliffe HE, Meltzer PS (2001) Association of steroid receptor coactivator AIB1 with estrogen receptor\u2010alpha in breast cancer cells. Breast Cancer Res Treat 70: 89\u2013101","journal-title":"Breast Cancer Res Treat"},{"key":"BFMSB201328_CR5","doi-asserted-by":"crossref","first-page":"3505","DOI":"10.1158\/0008-5472.CAN-07-6151","volume":"68","author":"DH Barnett","year":"2008","unstructured":"Barnett DH, Sheng S, Charn TH, Waheed A, Sly WS, Lin CY, Liu ET, Katzenellenbogen BS (2008) Estrogen receptor regulation of carbonic anhydrase XII through a distal enhancer in breast cancer. Cancer Res 68: 3505\u20133515","journal-title":"Cancer Res"},{"key":"BFMSB201328_CR6","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1016\/S0092-8674(04)00304-6","volume":"117","author":"MA Beer","year":"2004","unstructured":"Beer MA, Tavazoie S (2004) Predicting gene expression from sequence. Cell 117: 185\u2013198","journal-title":"Cell"},{"key":"BFMSB201328_CR7","doi-asserted-by":"crossref","first-page":"R70","DOI":"10.1186\/bcr2913","volume":"13","author":"A Bergamaschi","year":"2011","unstructured":"Bergamaschi A, Christensen BL, Katzenellenbogen BS (2011) Reversal of endocrine resistance in breast cancer: interrelationships among 14\u20103\u20103zeta, FOXM1, and a gene signature associated with mitosis. Breast Cancer Res 13: R70","journal-title":"Breast Cancer Res"},{"key":"BFMSB201328_CR8","doi-asserted-by":"crossref","first-page":"1928","DOI":"10.1128\/MCB.06561-11","volume":"32","author":"S Bhatt","year":"2012","unstructured":"Bhatt S, Xiao Z, Meng Z, Katzenellenbogen BS (2012) Phosphorylation by p38 mitogen\u2010activated protein kinase promotes estrogen receptor alpha turnover and functional activity via the SCF(Skp2) proteasomal complex. Mol Cell Biol 32: 1928\u20131943","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR9","doi-asserted-by":"crossref","first-page":"e13","DOI":"10.1093\/nar\/gkp1012","volume":"38","author":"KR Blahnik","year":"2010","unstructured":"Blahnik KR, Dou L, O'Geen H, McPhillips T, Xu X, Cao AR, Iyengar S, Nicolet CM, Ludascher B, Korf I, Farnham PJ (2010) Sole\u2010Search: an integrated analysis program for peak detection and functional annotation using ChIP\u2010seq data. Nucleic Acids Res 38: e13","journal-title":"Nucleic Acids Res"},{"key":"BFMSB201328_CR10","doi-asserted-by":"crossref","first-page":"789","DOI":"10.1016\/j.cell.2006.06.049","volume":"126","author":"AL Bookout","year":"2006","unstructured":"Bookout AL, Jeong Y, Downes M, Yu RT, Evans RM, Mangelsdorf DJ (2006) Anatomical profiling of nuclear receptor expression reveals a hierarchical transcriptional network. Cell 126: 789\u2013799","journal-title":"Cell"},{"key":"BFMSB201328_CR11","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1016\/j.cell.2005.05.008","volume":"122","author":"JS Carroll","year":"2005","unstructured":"Carroll JS, Liu XS, Brodsky AS, Li W, Meyer CA, Szary AJ, Eeckhoute J, Shao W, Hestermann EV, Geistlinger TR, Fox EA, Silver PA, Brown M (2005) Chromosome\u2010wide mapping of estrogen receptor binding reveals long\u2010range regulation requiring the forkhead protein FoxA1. Cell 122: 33\u201343","journal-title":"Cell"},{"key":"BFMSB201328_CR12","doi-asserted-by":"crossref","first-page":"1289","DOI":"10.1038\/ng1901","volume":"38","author":"JS Carroll","year":"2006","unstructured":"Carroll JS, Meyer CA, Song J, Li W, Geistlinger TR, Eeckhoute J, Brodsky AS, Keeton EK, Fertuck KC, Hall GF, Wang Q, Bekiranov S, Sementchenko V, Fox EA, Silver PA, Gingeras TR, Liu XS, Brown M (2006) Genome\u2010wide analysis of estrogen receptor binding sites. Nat Genet 38: 1289\u20131297","journal-title":"Nat Genet"},{"key":"BFMSB201328_CR13","doi-asserted-by":"crossref","first-page":"3741","DOI":"10.1002\/j.1460-2075.1995.tb00044.x","volume":"14","author":"V Cavailles","year":"1995","unstructured":"Cavailles V, Dauvois S, L'Horset F, Lopez G, Hoare S, Kushner PJ, Parker MG (1995) Nuclear factor RIP140 modulates transcriptional activation by the estrogen receptor. EMBO J 14: 3741\u20133751","journal-title":"EMBO J"},{"key":"BFMSB201328_CR14","doi-asserted-by":"crossref","first-page":"1032","DOI":"10.1210\/me.2007-0356","volume":"22","author":"EC Chang","year":"2008","unstructured":"Chang EC, Charn TH, Park SH, Helferich WG, Komm B, Katzenellenbogen JA, Katzenellenbogen BS (2008) Estrogen Receptors alpha and beta as determinants of gene expression: influence of ligand, dose, and chromatin binding. Mol Endocrinol 22: 1032\u20131043","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR15","doi-asserted-by":"crossref","first-page":"4831","DOI":"10.1210\/en.2006-0563","volume":"147","author":"EC Chang","year":"2006","unstructured":"Chang EC, Frasor J, Komm B, Katzenellenbogen BS (2006) Impact of estrogen receptor beta on gene networks regulated by estrogen receptor alpha in breast cancer cells. Endocrinology 147: 4831\u20134842","journal-title":"Endocrinology"},{"key":"BFMSB201328_CR16","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1210\/me.2009-0252","volume":"24","author":"TH Charn","year":"2010","unstructured":"Charn TH, Liu ET, Chang EC, Lee YK, Katzenellenbogen JA, Katzenellenbogen BS (2010) Genome\u2010wide dynamics of chromatin binding of estrogen receptors alpha and beta: mutual restriction and competitive site selection. Mol Endocrinol 24: 47\u201359","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR17","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1016\/S0303-7207(01)00492-0","volume":"181","author":"I Choi","year":"2001","unstructured":"Choi I, Ko C, Park\u2010Sarge OK, Nie R, Hess RA, Graves C, Katzenellenbogen BS (2001) Human estrogen receptor beta\u2010specific monoclonal antibodies: characterization and use in studies of estrogen receptor beta protein expression in reproductive tissues. Mol Cell Endocrinol 181: 139\u2013150","journal-title":"Mol Cell Endocrinol"},{"key":"BFMSB201328_CR18","doi-asserted-by":"crossref","first-page":"9383","DOI":"10.1128\/MCB.25.21.9383-9391.2005","volume":"25","author":"M Christian","year":"2005","unstructured":"Christian M, Kiskinis E, Debevec D, Leonardsson G, White R, Parker MG (2005) RIP140\u2010targeted repression of gene expression in adipocytes. Mol Cell Biol 25: 9383\u20139391","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR19","doi-asserted-by":"crossref","first-page":"19858","DOI":"10.1074\/jbc.272.32.19858","volume":"272","author":"SM Cowley","year":"1997","unstructured":"Cowley SM, Hoare S, Mosselman S, Parker MG (1997) Estrogen receptors alpha and beta form heterodimers on DNA. J Biol Chem 272: 19858\u201319862","journal-title":"J Biol Chem"},{"key":"BFMSB201328_CR20","doi-asserted-by":"crossref","first-page":"P3","DOI":"10.1186\/gb-2003-4-5-p3","volume":"4","author":"G Dennis Jr","year":"2003","unstructured":"Dennis G Jr, Sherman BT, Hosack DA, Yang J, Gao W, Lane HC, Lempicki RA (2003) DAVID: database for annotation, visualization, and integrated discovery. Genome Biol 4: P3","journal-title":"Genome Biol"},{"key":"BFMSB201328_CR21","doi-asserted-by":"crossref","first-page":"561","DOI":"10.1172\/JCI27987","volume":"116","author":"BJ Deroo","year":"2006","unstructured":"Deroo BJ, Korach KS (2006) Estrogen receptors and human disease. J Clin Invest 116: 561\u2013570","journal-title":"J Clin Invest"},{"key":"BFMSB201328_CR22","doi-asserted-by":"crossref","first-page":"2959","DOI":"10.1158\/1078-0432.CCR-09-3153","volume":"16","author":"A Docquier","year":"2010","unstructured":"Docquier A, Harmand PO, Fritsch S, Chanrion M, Darbon JM, Cavailles V (2010) The transcriptional coregulator RIP140 represses E2F1 activity and discriminates breast cancer subtypes. Clin Cancer Res 16: 2959\u20132970","journal-title":"Clin Cancer Res"},{"key":"BFMSB201328_CR23","doi-asserted-by":"crossref","first-page":"6477","DOI":"10.1158\/0008-5472.CAN-07-0746","volume":"67","author":"J Eeckhoute","year":"2007","unstructured":"Eeckhoute J, Keeton EK, Lupien M, Krum SA, Carroll JS, Brown M (2007) Positive cross\u2010regulatory loop ties GATA\u20103 to estrogen receptor alpha expression in breast cancer. Cancer Res 67: 6477\u20136483","journal-title":"Cancer Res"},{"key":"BFMSB201328_CR24","doi-asserted-by":"crossref","first-page":"605","DOI":"10.1038\/nrg2636","volume":"10","author":"PJ Farnham","year":"2009","unstructured":"Farnham PJ (2009) Insights from genomic profiling of transcription factors. Nat Rev Genet 10: 605\u2013616","journal-title":"Nat Rev Genet"},{"key":"BFMSB201328_CR25","doi-asserted-by":"crossref","first-page":"5041","DOI":"10.1128\/MCB.20.14.5041-5047.2000","volume":"20","author":"J Font de Mora","year":"2000","unstructured":"Font de Mora J, Brown M (2000) AIB1 is a conduit for kinase\u2010mediated growth factor signaling to the estrogen receptor. Mol Cell Biol 20: 5041\u20135047","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR26","doi-asserted-by":"crossref","first-page":"7334","DOI":"10.1158\/0008-5472.CAN-05-4269","volume":"66","author":"J Frasor","year":"2006","unstructured":"Frasor J, Chang EC, Komm B, Lin CY, Vega VB, Liu ET, Miller LD, Smeds J, Bergh J, Katzenellenbogen BS (2006) Gene expression preferentially regulated by tamoxifen in breast cancer cells and correlations with clinical outcome. Cancer Res 66: 7334\u20137340","journal-title":"Cancer Res"},{"key":"BFMSB201328_CR27","doi-asserted-by":"crossref","first-page":"4562","DOI":"10.1210\/en.2003-0567","volume":"144","author":"J Frasor","year":"2003","unstructured":"Frasor J, Danes JM, Komm B, Chang KC, Lyttle CR, Katzenellenbogen BS (2003) Profiling of estrogen up\u2010 and down\u2010regulated gene expression in human breast cancer cells: insights into gene networks and pathways underlying estrogenic control of proliferation and cell phenotype. Endocrinology 144: 4562\u20134574","journal-title":"Endocrinology"},{"key":"BFMSB201328_CR28","doi-asserted-by":"crossref","first-page":"58","DOI":"10.1038\/nature08497","volume":"462","author":"MJ Fullwood","year":"2009","unstructured":"Fullwood MJ, Liu MH, Pan YF, Liu J, Xu H, Mohamed YB, Orlov YL, Velkov S, Ho A, Mei PH, Chew EG, Huang PY, Welboren WJ, Han Y, Ooi HS, Ariyaratne PN, Vega VB, Luo Y, Tan PY, Choy PY et al (2009) An oestrogen\u2010receptor\u2010alpha\u2010bound human chromatin interactome. Nature 462: 58\u201364","journal-title":"Nature"},{"key":"BFMSB201328_CR29","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1101\/gad.14.2.121","volume":"14","author":"CK Glass","year":"2000","unstructured":"Glass CK, Rosenfeld MG (2000) The coregulator exchange in transcriptional functions of nuclear receptors. Genes Dev 14: 121\u2013141","journal-title":"Genes Dev"},{"key":"BFMSB201328_CR30","doi-asserted-by":"crossref","first-page":"713","DOI":"10.1038\/nrc2211","volume":"7","author":"KA Green","year":"2007","unstructured":"Green KA, Carroll JS (2007) Oestrogen\u2010receptor\u2010mediated transcription and the influence of co\u2010factors and chromatin state. Nat Rev Cancer 7: 713\u2013722","journal-title":"Nat Rev Cancer"},{"key":"BFMSB201328_CR31","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/1471-2164-12-36","volume":"12","author":"OM Grober","year":"2011","unstructured":"Grober OM, Mutarelli M, Giurato G, Ravo M, Cicatiello L, De Filippo MR, Ferraro L, Nassa G, Papa MF, Paris O, Tarallo R, Luo S, Schroth GP, Benes V, Weisz A (2011) Global analysis of estrogen receptor beta binding to breast cancer cell genome reveals an extensive interplay with estrogen receptor alpha for target gene regulation. BMC Genomics 12: 36","journal-title":"BMC Genomics"},{"key":"BFMSB201328_CR32","doi-asserted-by":"crossref","first-page":"1987","DOI":"10.1158\/1078-0432.CCR-06-1823","volume":"13","author":"SK Gruvberger\u2010Saal","year":"2007","unstructured":"Gruvberger\u2010Saal SK, Bendahl PO, Saal LH, Laakso M, Hegardt C, Eden P, Peterson C, Malmstrom P, Isola J, Borg A, Ferno M (2007) Estrogen receptor beta expression is associated with tamoxifen response in ERalpha\u2010negative breast carcinoma. Clin Cancer Res 13: 1987\u20131994","journal-title":"Clin Cancer Res"},{"key":"BFMSB201328_CR33","doi-asserted-by":"crossref","first-page":"622","DOI":"10.1016\/j.cell.2011.03.042","volume":"145","author":"N Hah","year":"2011","unstructured":"Hah N, Danko CG, Core L, Waterfall JJ, Siepel A, Lis JT, Kraus WL (2011) A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells. Cell 145: 622\u2013634","journal-title":"Cell"},{"key":"BFMSB201328_CR34","first-page":"149","volume":"1","author":"HA Harris","year":"2006","unstructured":"Harris HA (2006) Preclinical characterization of selective estrogen receptor beta agonists: new insights into their therapeutic potential. Ernst Schering Found Symp Proc 1: 149\u2013161","journal-title":"Ernst Schering Found Symp Proc"},{"key":"BFMSB201328_CR35","doi-asserted-by":"crossref","first-page":"811","DOI":"10.1002\/sim.4780090710","volume":"9","author":"Y Hochberg","year":"1990","unstructured":"Hochberg Y, Benjamini Y (1990) More powerful procedures for multiple significance testing. Stat Med 9: 811\u2013818","journal-title":"Stat Med"},{"key":"BFMSB201328_CR36","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1038\/nprot.2008.211","volume":"4","author":"W Huang da","year":"2009","unstructured":"Huang da W, Sherman BT, Lempicki RA (2009) Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 4: 44\u201357","journal-title":"Nat Protoc"},{"key":"BFMSB201328_CR37","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1038\/ng.730","volume":"43","author":"A Hurtado","year":"2011","unstructured":"Hurtado A, Holmes KA, Ross\u2010Innes CS, Schmidt D, Carroll JS (2011) FOXA1 is a key determinant of estrogen receptor function and endocrine response. Nat Genet 43: 27\u201333","journal-title":"Nat Genet"},{"key":"BFMSB201328_CR38","doi-asserted-by":"crossref","first-page":"456","DOI":"10.1038\/msb.2010.109","volume":"6","author":"R Joseph","year":"2010","unstructured":"Joseph R, Orlov YL, Huss M, Sun W, Kong SL, Ukil L, Pan YF, Li G, Lim M, Thomsen JS, Ruan Y, Clarke ND, Prabhakar S, Cheung E, Liu ET (2010) Integrative model of genomic factors for determining binding site selection by estrogen receptor\u2010alpha. Mol Syst Biol 6: 456","journal-title":"Mol Syst Biol"},{"key":"BFMSB201328_CR39","doi-asserted-by":"crossref","first-page":"381","DOI":"10.1038\/nrc3263","volume":"12","author":"KM Jozwik","year":"2012","unstructured":"Jozwik KM, Carroll JS (2012) Pioneer factors in hormone\u2010dependent cancers. Nat Rev Cancer 12: 381\u2013385","journal-title":"Nat Rev Cancer"},{"key":"BFMSB201328_CR40","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1186\/bcr78","volume":"2","author":"BS Katzenellenbogen","year":"2000","unstructured":"Katzenellenbogen BS, Katzenellenbogen JA (2000) Estrogen receptor transcription and transactivation: estrogen receptor alpha and estrogen receptor beta: regulation by selective estrogen receptor modulators and importance in breast cancer. Breast Cancer Res 2: 335\u2013344","journal-title":"Breast Cancer Res"},{"key":"BFMSB201328_CR41","doi-asserted-by":"crossref","first-page":"2380","DOI":"10.1126\/science.1070442","volume":"295","author":"BS Katzenellenbogen","year":"2002","unstructured":"Katzenellenbogen BS, Katzenellenbogen JA (2002) Defining the \u2018S\u2019 in SERMs. Science 295: 2380\u20132381","journal-title":"Science"},{"key":"BFMSB201328_CR42","first-page":"163","volume":"55","author":"BS Katzenellenbogen","year":"2000","unstructured":"Katzenellenbogen BS, Montano MM, Ediger TR, Sun J, Ekena K, Lazennec G, Martini PG, McInerney EM, Delage\u2010Mourroux R, Weis K, Katzenellenbogen JA (2000) Estrogen receptors: selective ligands, partners, and distinctive pharmacology. Recent Prog Horm Res 55: 163\u2013193 discussion 194\u2013195","journal-title":"Recent Prog Horm Res"},{"key":"BFMSB201328_CR43","first-page":"526","volume":"7","author":"SL Kong","year":"2011","unstructured":"Kong SL, Li G, Loh SL, Sung WK, Liu ET (2011) Cellular reprogramming by the conjoint action of ERalpha, FOXA1, and GATA3 to a ligand\u2010inducible growth state. Mol Syst Biol 7: 526","journal-title":"Mol Syst Biol"},{"key":"BFMSB201328_CR44","first-page":"512","volume":"6","author":"J Kurebayashi","year":"2000","unstructured":"Kurebayashi J, Otsuki T, Kunisue H, Tanaka K, Yamamoto S, Sonoo H (2000) Expression levels of estrogen receptor\u2010alpha, estrogen receptor\u2010beta, coactivators, and corepressors in breast cancer. Clin Cancer Res 6: 512\u2013518","journal-title":"Clin Cancer Res"},{"key":"BFMSB201328_CR45","doi-asserted-by":"crossref","first-page":"859","DOI":"10.1210\/me.2009-0499","volume":"24","author":"RB Lanz","year":"2010","unstructured":"Lanz RB, Bulynko Y, Malovannaya A, Labhart P, Wang L, Li W, Qin J, Harper M, O'Malley BW (2010) Global characterization of transcriptional impact of the SRC\u20103 coregulator. Mol Endocrinol 24: 859\u2013872","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR46","doi-asserted-by":"crossref","first-page":"4120","DOI":"10.1210\/endo.142.9.8395","volume":"142","author":"G Lazennec","year":"2001","unstructured":"Lazennec G, Bresson D, Lucas A, Chauveau C, Vignon F (2001) ER beta inhibits proliferation and invasion of breast cancer cells. Endocrinology 142: 4120\u20134130","journal-title":"Endocrinology"},{"key":"BFMSB201328_CR47","doi-asserted-by":"crossref","first-page":"R25","DOI":"10.1186\/bcr1667","volume":"9","author":"CY Lin","year":"2007","unstructured":"Lin CY, Strom A, Li Kong S, Kietz S, Thomsen JS, Tee JB, Vega VB, Miller LD, Smeds J, Bergh J, Gustafsson JA, Liu ET (2007a) Inhibitory effects of estrogen receptor beta on specific hormone\u2010responsive gene expression and association with disease outcome in primary breast cancer. Breast Cancer Res 9: R25","journal-title":"Breast Cancer Res"},{"key":"BFMSB201328_CR48","doi-asserted-by":"crossref","first-page":"e87","DOI":"10.1371\/journal.pgen.0030087","volume":"3","author":"CY Lin","year":"2007","unstructured":"Lin CY, Vega VB, Thomsen JS, Zhang T, Kong SL, Xie M, Chiu KP, Lipovich L, Barnett DH, Stossi F, Yeo A, George J, Kuznetsov VA, Lee YK, Charn TH, Palanisamy N, Miller LD, Cheung E, Katzenellenbogen BS, Ruan Y et al (2007b) Whole\u2010genome cartography of estrogen receptor alpha binding sites. PLoS Genet 3: e87","journal-title":"PLoS Genet"},{"key":"BFMSB201328_CR49","doi-asserted-by":"crossref","first-page":"R83","DOI":"10.1186\/gb-2011-12-8-r83","volume":"12","author":"T Liu","year":"2011","unstructured":"Liu T, Ortiz JA, Taing L, Meyer CA, Lee B, Zhang Y, Shin H, Wong SS, Ma J, Lei Y, Pape UJ, Poidinger M, Chen Y, Yeung K, Brown M, Turpaz Y, Liu XS (2011) Cistrome: an integrative platform for transcriptional regulation studies. Genome Biol 12: R83","journal-title":"Genome Biol"},{"key":"BFMSB201328_CR50","doi-asserted-by":"crossref","first-page":"5157","DOI":"10.1128\/MCB.24.12.5157-5171.2004","volume":"24","author":"MC Louie","year":"2004","unstructured":"Louie MC, Zou JX, Rabinovich A, Chen HW (2004) ACTR\/AIB1 functions as an E2F1 coactivator to promote breast cancer cell proliferation and antiestrogen resistance. Mol Cell Biol 24: 5157\u20135171","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR51","doi-asserted-by":"crossref","first-page":"958","DOI":"10.1016\/j.cell.2008.01.018","volume":"132","author":"M Lupien","year":"2008","unstructured":"Lupien M, Eeckhoute J, Meyer CA, Wang Q, Zhang Y, Li W, Carroll JS, Liu XS, Brown M (2008) FoxA1 translates epigenetic signatures into enhancer\u2010driven lineage\u2010specific transcription. Cell 132: 958\u2013970","journal-title":"Cell"},{"key":"BFMSB201328_CR52","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1093\/toxsci\/kfr300","volume":"125","author":"Z Madak\u2010Erdogan","year":"2012","unstructured":"Madak\u2010Erdogan Z, Katzenellenbogen BS (2012) Aryl hydrocarbon receptor modulation of estrogen receptor alpha\u2010mediated gene regulation by a multimeric chromatin complex involving the two receptors and the coregulator RIP140. Toxicol Sci 125: 401\u2013411","journal-title":"Toxicol Sci"},{"key":"BFMSB201328_CR53","doi-asserted-by":"crossref","first-page":"226","DOI":"10.1128\/MCB.00821-10","volume":"31","author":"Z Madak\u2010Erdogan","year":"2011","unstructured":"Madak\u2010Erdogan Z, Lupien M, Stossi F, Brown M, Katzenellenbogen BS (2011) Genomic collaboration of estrogen receptor alpha and extracellular signal\u2010regulated kinase 2 in regulating gene and proliferation programs. Mol Cell Biol 31: 226\u2013236","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR54","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1016\/S0092-8674(02)00641-4","volume":"108","author":"NJ McKenna","year":"2002","unstructured":"McKenna NJ, O'Malley BW (2002) Combinatorial control of gene expression by nuclear receptors and coregulators. Cell 108: 465\u2013474","journal-title":"Cell"},{"key":"BFMSB201328_CR55","doi-asserted-by":"crossref","first-page":"495","DOI":"10.1038\/nbt.1630","volume":"28","author":"CY McLean","year":"2010","unstructured":"McLean CY, Bristor D, Hiller M, Clarke SL, Schaar BT, Lowe CB, Wenger AM, Bejerano G (2010) GREAT improves functional interpretation of cis\u2010regulatory regions. Nat Biotechnol 28: 495\u2013501","journal-title":"Nat Biotechnol"},{"key":"BFMSB201328_CR56","doi-asserted-by":"crossref","first-page":"4230","DOI":"10.1021\/jm010254a","volume":"44","author":"MJ Meyers","year":"2001","unstructured":"Meyers MJ, Sun J, Carlson KE, Marriner GA, Katzenellenbogen BS, Katzenellenbogen JA (2001) Estrogen receptor\u2010beta potency\u2010selective ligands: structure\u2010activity relationship studies of diarylpropionitriles and their acetylene and polar analogues. J Med Chem 44: 4230\u20134251","journal-title":"J Med Chem"},{"key":"BFMSB201328_CR57","doi-asserted-by":"crossref","first-page":"667","DOI":"10.1039\/C0MB00145G","volume":"7","author":"G Nassa","year":"2011","unstructured":"Nassa G, Tarallo R, Guzzi PH, Ferraro L, Cirillo F, Ravo M, Nola E, Baumann M, Nyman TA, Cannataro M, Ambrosino C, Weisz A (2011) Comparative analysis of nuclear estrogen receptor alpha and beta interactomes in breast cancer cells. Mol Biosyst 7: 667\u2013676","journal-title":"Mol Biosyst"},{"key":"BFMSB201328_CR58","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1038\/clpt.2010.226","volume":"89","author":"S Nilsson","year":"2011","unstructured":"Nilsson S, Gustafsson JA (2011) Estrogen receptors: therapies targeted to receptor subtypes. Clin Pharmacol Ther 89: 44\u201355","journal-title":"Clin Pharmacol Ther"},{"key":"BFMSB201328_CR59","doi-asserted-by":"crossref","first-page":"1535","DOI":"10.1152\/physrev.2001.81.4.1535","volume":"81","author":"S Nilsson","year":"2001","unstructured":"Nilsson S, Makela S, Treuter E, Tujague M, Thomsen J, Andersson G, Enmark E, Pettersson K, Warner M, Gustafsson JA (2001) Mechanisms of estrogen action. Physiol Rev 81: 1535\u20131565","journal-title":"Physiol Rev"},{"key":"BFMSB201328_CR60","doi-asserted-by":"crossref","first-page":"25832","DOI":"10.1074\/jbc.272.41.25832","volume":"272","author":"P Pace","year":"1997","unstructured":"Pace P, Taylor J, Suntharalingam S, Coombes RC, Ali S (1997) Human estrogen receptor beta binds DNA in a manner similar to and dimerizes with estrogen receptor alpha. J Biol Chem 272: 25832\u201325838","journal-title":"J Biol Chem"},{"key":"BFMSB201328_CR61","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1158\/0008-5472.CAN-03-2446","volume":"64","author":"S Paruthiyil","year":"2004","unstructured":"Paruthiyil S, Parmar H, Kerekatte V, Cunha GR, Firestone GL, Leitman DC (2004) Estrogen receptor beta inhibits human breast cancer cell proliferation and tumor formation by causing a G2 cell cycle arrest. Cancer Res 64: 423\u2013428","journal-title":"Cancer Res"},{"key":"BFMSB201328_CR62","doi-asserted-by":"crossref","first-page":"2029","DOI":"10.1210\/me.2011-1145","volume":"25","author":"R Paulmurugan","year":"2011","unstructured":"Paulmurugan R, Tamrazi A, Massoud TF, Katzenellenbogen JA, Gambhir SS (2011) In vitro and in vivo molecular imaging of estrogen receptor alpha and beta homo\u2010 and heterodimerization: exploration of new modes of receptor regulation. Mol Endocrinol 25: 2029\u20132040","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR63","doi-asserted-by":"crossref","first-page":"e30993","DOI":"10.1371\/journal.pone.0030993","volume":"7","author":"E Powell","year":"2012","unstructured":"Powell E, Shanle E, Brinkman A, Li J, Keles S, Wisinski KB, Huang W, Xu W (2012) Identification of estrogen receptor dimer selective ligands reveals growth\u2010inhibitory effects on cells that co\u2010express ERalpha and ERbeta. PLoS One 7: e30993","journal-title":"PLoS One"},{"key":"BFMSB201328_CR64","doi-asserted-by":"crossref","first-page":"19012","DOI":"10.1073\/pnas.0807274105","volume":"105","author":"E Powell","year":"2008","unstructured":"Powell E, Xu W (2008) Intermolecular interactions identify ligand\u2010selective activity of estrogen receptor alpha\/beta dimers. Proc Natl Acad Sci USA 105: 19012\u201319017","journal-title":"Proc Natl Acad Sci USA"},{"key":"BFMSB201328_CR65","doi-asserted-by":"crossref","first-page":"919","DOI":"10.1016\/j.bbadis.2010.12.016","volume":"1812","author":"M Rosell","year":"2011","unstructured":"Rosell M, Jones MC, Parker MG (2011) Role of nuclear receptor corepressor RIP140 in metabolic syndrome. Biochim Biophys Acta 1812: 919\u2013928","journal-title":"Biochim Biophys Acta"},{"key":"BFMSB201328_CR66","doi-asserted-by":"crossref","first-page":"389","DOI":"10.1038\/nature10730","volume":"481","author":"CS Ross\u2010Innes","year":"2012","unstructured":"Ross\u2010Innes CS, Stark R, Teschendorff AE, Holmes KA, Ali HR, Dunning MJ, Brown GD, Gojis O, Ellis IO, Green AR, Ali S, Chin SF, Palmieri C, Caldas C, Carroll JS (2012) Differential oestrogen receptor binding is associated with clinical outcome in breast cancer. Nature 481: 389\u2013393","journal-title":"Nature"},{"key":"BFMSB201328_CR67","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1007\/s00280-005-0107-3","volume":"56","author":"S Saji","year":"2005","unstructured":"Saji S, Hirose M, Toi M (2005) Clinical significance of estrogen receptor beta in breast cancer. Cancer Chemother Pharmacol 56: Suppl 121\u201326","journal-title":"Cancer Chemother Pharmacol"},{"key":"BFMSB201328_CR68","doi-asserted-by":"crossref","first-page":"2605","DOI":"10.1093\/bioinformatics\/btp479","volume":"25","author":"H Shin","year":"2009","unstructured":"Shin H, Liu T, Manrai AK, Liu XS (2009) CEAS: cis\u2010regulatory element annotation system. Bioinformatics 25: 2605\u20132606","journal-title":"Bioinformatics"},{"key":"BFMSB201328_CR69","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1016\/j.tem.2011.10.001","volume":"23","author":"R Siersbaek","year":"2012","unstructured":"Siersbaek R, Nielsen R, Mandrup S (2012) Transcriptional networks and chromatin remodeling controlling adipogenesis. Trends Endocrinol Metab 23: 56\u201364","journal-title":"Trends Endocrinol Metab"},{"key":"BFMSB201328_CR70","doi-asserted-by":"crossref","first-page":"616","DOI":"10.1038\/sj.bjc.6603295","volume":"95","author":"GP Skliris","year":"2006","unstructured":"Skliris GP, Leygue E, Curtis\u2010Snell L, Watson PH, Murphy LC (2006) Expression of oestrogen receptor\u2010beta in oestrogen receptor\u2010alpha negative human breast tumours. Br J Cancer 95: 616\u2013626","journal-title":"Br J Cancer"},{"key":"BFMSB201328_CR71","doi-asserted-by":"crossref","first-page":"174","DOI":"10.1016\/S1470-2045(04)01413-5","volume":"5","author":"V Speirs","year":"2004","unstructured":"Speirs V, Carder PJ, Lane S, Dodwell D, Lansdown MR, Hanby AM (2004) Oestrogen receptor beta: what it means for patients with breast cancer. Lancet Oncol 5: 174\u2013181","journal-title":"Lancet Oncol"},{"key":"BFMSB201328_CR72","doi-asserted-by":"crossref","first-page":"2112","DOI":"10.1210\/me.2006-0474","volume":"21","author":"JD Stender","year":"2007","unstructured":"Stender JD, Frasor J, Komm B, Chang KC, Kraus WL, Katzenellenbogen BS (2007) Estrogen\u2010regulated gene networks in human breast cancer cells: involvement of E2F1 in the regulation of cell proliferation. Mol Endocrinol 21: 2112\u20132123","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR73","doi-asserted-by":"crossref","first-page":"3943","DOI":"10.1128\/MCB.00118-10","volume":"30","author":"JD Stender","year":"2010","unstructured":"Stender JD, Kim K, Charn TH, Komm B, Chang KC, Kraus WL, Benner C, Glass CK, Katzenellenbogen BS (2010) Genome\u2010wide analysis of estrogen receptor alpha DNA binding and tethering mechanisms identifies Runx1 as a novel tethering factor in receptor\u2010mediated transcriptional activation. Mol Cell Biol 30: 3943\u20133955","journal-title":"Mol Cell Biol"},{"key":"BFMSB201328_CR74","doi-asserted-by":"crossref","first-page":"1566","DOI":"10.1073\/pnas.0308319100","volume":"101","author":"A Strom","year":"2004","unstructured":"Strom A, Hartman J, Foster JS, Kietz S, Wimalasena J, Gustafsson JA (2004) Estrogen receptor beta inhibits 17beta\u2010estradiol\u2010stimulated proliferation of the breast cancer cell line T47D. Proc Natl Acad Sci USA 101: 1566\u20131571","journal-title":"Proc Natl Acad Sci USA"},{"key":"BFMSB201328_CR75","doi-asserted-by":"crossref","first-page":"27645","DOI":"10.1074\/jbc.273.42.27645","volume":"273","author":"CS Suen","year":"1998","unstructured":"Suen CS, Berrodin TJ, Mastroeni R, Cheskis BJ, Lyttle CR, Frail DE (1998) A transcriptional coactivator, steroid receptor coactivator\u20103, selectively augments steroid receptor transcriptional activity. J Biol Chem 273: 27645\u201327653","journal-title":"J Biol Chem"},{"key":"BFMSB201328_CR76","doi-asserted-by":"crossref","first-page":"1418","DOI":"10.1038\/emboj.2009.88","volume":"28","author":"WJ Welboren","year":"2009","unstructured":"Welboren WJ, van Driel MA, Janssen\u2010Megens EM, van Heeringen SJ, Sweep FC, Span PN, Stunnenberg HG (2009) ChIP\u2010Seq of ERalpha and RNA polymerase II defines genes differentially responding to ligands. EMBO J 28: 1418\u20131428","journal-title":"EMBO J"},{"key":"BFMSB201328_CR77","doi-asserted-by":"crossref","first-page":"1019","DOI":"10.1038\/sj.onc.1210712","volume":"27","author":"C Williams","year":"2008","unstructured":"Williams C, Edvardsson K, Lewandowski SA, Strom A, Gustafsson JA (2008) A genome\u2010wide study of the repressive effects of estrogen receptor beta on estrogen receptor alpha signaling in breast cancer cells. Oncogene 27: 1019\u20131032","journal-title":"Oncogene"},{"key":"BFMSB201328_CR78","doi-asserted-by":"crossref","first-page":"955","DOI":"10.1210\/me.2012-1066","volume":"26","author":"K Won Jeong","year":"2012","unstructured":"Won Jeong K, Chodankar R, Purcell DJ, Bittencourt D, Stallcup MR (2012) Gene\u2010specific patterns of coregulator requirements by estrogen receptor\u2010alpha in breast cancer cells. Mol Endocrinol 26: 955\u2013966","journal-title":"Mol Endocrinol"},{"key":"BFMSB201328_CR79","doi-asserted-by":"crossref","first-page":"6379","DOI":"10.1073\/pnas.120166297","volume":"97","author":"J Xu","year":"2000","unstructured":"Xu J, Liao L, Ning G, Yoshida\u2010Komiya H, Deng C, O'Malley BW (2000) The steroid receptor coactivator SRC\u20103 (p\/CIP\/RAC3\/AIB1\/ACTR\/TRAM\u20101) is required for normal growth, puberty, female reproductive function, and mammary gland development. Proc Natl Acad Sci USA 97: 6379\u20136384","journal-title":"Proc Natl Acad Sci USA"},{"key":"BFMSB201328_CR80","doi-asserted-by":"crossref","first-page":"615","DOI":"10.1038\/nrc2695","volume":"9","author":"J Xu","year":"2009","unstructured":"Xu J, Wu RC, O'Malley BW (2009) Normal and cancer\u2010related functions of the p160 steroid receptor co\u2010activator (SRC) family. Nat Rev Cancer 9: 615\u2013630","journal-title":"Nat Rev Cancer"},{"key":"BFMSB201328_CR81","doi-asserted-by":"crossref","first-page":"e35","DOI":"10.1093\/nar\/gkq1287","volume":"39","author":"T Ye","year":"2011","unstructured":"Ye T, Krebs AR, Choukrallah MA, Keime C, Plewniak F, Davidson I, Tora L (2011) seqMINER: an integrated ChIP\u2010seq data interpretation platform. Nucleic Acids Res 39: e35","journal-title":"Nucleic Acids Res"},{"key":"BFMSB201328_CR82","doi-asserted-by":"crossref","first-page":"R137","DOI":"10.1186\/gb-2008-9-9-r137","volume":"9","author":"Y Zhang","year":"2008","unstructured":"Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nussbaum C, Myers RM, Brown M, Li W, Liu XS (2008) Model\u2010based analysis of ChIP\u2010Seq (MACS). Genome Biol 9: R137","journal-title":"Genome Biol"},{"key":"BFMSB201328_CR83","doi-asserted-by":"crossref","first-page":"1049","DOI":"10.1007\/s10549-011-1895-2","volume":"132","author":"LJ Esserman","year":"2012","unstructured":"Esserman LJ, Berry DA, Cheang MC, Yau C, Perou CM, Carey L, DeMuchele A, Gray JW, Conway\u2010Dorsey K, Lenburg ME, Buxton MB, Davis SE, van't Veer LJ, Hudis C, Chin K, Wolf D, Krontiras H, Montgomery L, Tripathy D, Lehman C et al (2012) Chemotherapy response and recurrence\u2010free survival in neoadjuvant breast cancer depends on biomarker profiles: results from the I\u2010SPY 1 TRIAL (CALGB 150007\/150012; ACRIN 6657). Breast Cancer Res Treat 132: 1049\u20131062","journal-title":"Breast Cancer Res Treat"},{"key":"BFMSB201328_CR84","doi-asserted-by":"crossref","first-page":"518","DOI":"10.1038\/nm1764","volume":"14","author":"G Finak","year":"2008","unstructured":"Finak G, Bertos N, Pepin F, Sadekova S, Souleimanova M, Zhao H, Chen H, Omeroglu G, Meterissian S, Omeroglu A, Hallett M, Park M (2008) Stromal gene expression predicts clinical outcome in breast cancer. Nat Medicine 14: 518\u2013527","journal-title":"Nat Medicine"},{"key":"BFMSB201328_CR85","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1186\/1471-2407-11-143","volume":"11","author":"KJ Kao","year":"2011","unstructured":"Kao KJ, Chang KM, Hsu HC, Huang AT (2011) Correlation of microarray\u2010based breast cancer molecular subtypes and clinical outcomes: implications for treatment optimization. BMC Cancer 11: 143","journal-title":"BMC Cancer"},{"key":"BFMSB201328_CR86","doi-asserted-by":"crossref","first-page":"1999","DOI":"10.1056\/NEJMoa021967","volume":"347","author":"MJ van de Vijver","year":"2002","unstructured":"van de Vijver MJ, He YD, van't Veer LJ, Dai H, Hart AA, Voskuil DW, Schreiber GJ, Peterse JL, Roberts C, Marton MJ, Parrish M, Atsma D, Witteveen A, Glas A, Delahaye L, van der Velde T, Bartelink H, Rodenhuis S, Rutgers ET, Friend SH et al (2002) A gene\u2010expression signature as a predictor of survival in breast cancer. New Engl J Med 347: 1999\u20132009","journal-title":"New Engl J Med"}],"updated-by":[{"DOI":"10.15252\/msb.20177595","type":"correction","label":"Correction","source":"publisher","updated":{"date-parts":[[2017,4,25]],"date-time":"2017-04-25T00:00:00Z","timestamp":1493078400000}},{"DOI":"10.15252\/msb.20177595","type":"erratum","label":"Erratum","source":"publisher","updated":{"date-parts":[[2017,4,25]],"date-time":"2017-04-25T00:00:00Z","timestamp":1493078400000}}],"container-title":["Molecular Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.wiley.com\/onlinelibrary\/tdm\/v1\/articles\/10.1038%2Fmsb.2013.28","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1038\/msb.2013.28.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full-xml\/10.1038\/msb.2013.28","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1038\/msb.2013.28\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.embopress.org\/doi\/pdf\/10.1038\/msb.2013.28","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1038\/msb.2013.28.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,5,25]],"date-time":"2026-05-25T19:39:48Z","timestamp":1779737988000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1038\/msb.2013.28"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,6,18]]},"references-count":86,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2013,6,18]]}},"alternative-id":["BFMSB201328"],"URL":"https:\/\/doi.org\/10.1038\/msb.2013.28","relation":{},"ISSN":["1744-4292"],"issn-type":[{"value":"1744-4292","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,6,18]]},"assertion":[{"value":"12 November 2012","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 May 2013","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"18 June 2013","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare that they have no conflict of interest.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflict of Interest"}}],"article-number":"MSB201328"}}