{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,8,28]],"date-time":"2024-08-28T07:51:59Z","timestamp":1724831519364},"reference-count":71,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Syst Biol"],"published-print":{"date-parts":[[2012,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>Estrogen therapy has positively impact the treatment of several cancers, such as prostate, lung and breast cancers. Moreover, several groups have reported the importance of estrogen induced gene regulation in esophageal cancer (EC). This suggests that there could be a potential for estrogen therapy for EC. The efficient design of estrogen therapies requires as complete as possible list of genes responsive to estrogen. Our study develops a systems biology methodology using esophageal squamous cell carcinoma (ESCC) as a model to identify estrogen responsive genes. These genes, on the other hand, could be affected by estrogen therapy in ESCC.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>Based on different sources of information we identified 418 genes implicated in ESCC. Putative estrogen responsive elements (EREs) mapped to the promoter region of the ESCC genes were used to initially identify candidate estrogen responsive genes. EREs mapped to the promoter sequence of 30.62% (128\/418) of ESCC genes of which 43.75% (56\/128) are known to be estrogen responsive, while 56.25% (72\/128) are new candidate estrogen responsive genes. EREs did not map to 290 ESCC genes. Of these 290 genes, 50.34% (146\/290) are known to be estrogen responsive. By analyzing transcription factor binding sites (TFBSs) in the promoters of the 202 (56+146) known estrogen responsive ESCC genes under study, we found that their regulatory potential may be characterized by 44 significantly over-represented co-localized TFBSs (cTFBSs). We were able to map these cTFBSs to promoters of 32 of the 72 new candidate estrogen responsive ESCC genes, thereby increasing confidence that these 32 ESCC genes are responsive to estrogen since their promoters contain both: a\/mapped EREs, and b\/at least four cTFBSs characteristic of ESCC genes that are responsive to estrogen. Recent publications confirm that 47% (15\/32) of these 32 predicted genes are indeed responsive to estrogen.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusion<\/jats:title>\n            <jats:p>To the best of our knowledge our study is the first to use a cancer disease model as the framework to identify hormone responsive genes. Although we used ESCC as the disease model and estrogen as the hormone, the methodology can be extended analogously to other diseases as the model and other hormones. We believe that our results provide useful information for those interested in genes responsive to hormones and in the design of hormone-based therapies.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1752-0509-6-135","type":"journal-article","created":{"date-parts":[[2012,10,26]],"date-time":"2012-10-26T12:14:44Z","timestamp":1351253684000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Identification of estrogen responsive genes using esophageal squamous cell carcinoma (ESCC) as a model"],"prefix":"10.1186","volume":"6","author":[{"given":"Magbubah","family":"Essack","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Cameron Ross","family":"MacPherson","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sebastian","family":"Schmeier","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vladimir B","family":"Bajic","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2012,10,26]]},"reference":[{"issue":"4","key":"963_CR1","doi-asserted-by":"publisher","first-page":"594","DOI":"10.1002\/ijc.2910540413","volume":"54","author":"DM Parkin","year":"1993","unstructured":"Parkin DM, Pisani P, Ferlay J: Estimates of the worldwide incidence of eighteen major cancers in 1985. Int J Cancer. 1993, 54 (4): 594-606. 10.1002\/ijc.2910540413.","journal-title":"Int J Cancer"},{"issue":"6","key":"963_CR2","doi-asserted-by":"publisher","first-page":"891","DOI":"10.1002\/ijc.2910550604","volume":"55","author":"P Pisani","year":"1993","unstructured":"Pisani P, Parkin DM, Ferlay J: Estimates of the worldwide mortality from eighteen major cancers in 1985. Implications for prevention and projections of future burden. Int J Cancer. 1993, 55 (6): 891-903. 10.1002\/ijc.2910550604.","journal-title":"Int J Cancer"},{"issue":"2","key":"963_CR3","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1634\/theoncologist.4-2-95","volume":"4","author":"CE Reed","year":"1999","unstructured":"Reed CE: Surgical management of esophageal carcinoma. Oncologist. 1999, 4 (2): 95-105.","journal-title":"Oncologist"},{"key":"963_CR4","first-page":"141","volume":"8","author":"GDRA Stoner","year":"1995","unstructured":"Stoner GDRA: Biology of the esophageal squamous cell carcinoma. Gastrointest Cancers Biol Diagn. 1995, 8: 141-146.","journal-title":"Gastrointest Cancers Biol Diagn"},{"issue":"1","key":"963_CR5","doi-asserted-by":"publisher","first-page":"38","DOI":"10.1016\/j.semradonc.2006.09.007","volume":"17","author":"JR Siewert","year":"2007","unstructured":"Siewert JR, Ott K: Are squamous and adenocarcinomas of the esophagus the same disease?. Semin Radiat Oncol. 2007, 17 (1): 38-44. 10.1016\/j.semradonc.2006.09.007.","journal-title":"Semin Radiat Oncol"},{"issue":"6","key":"963_CR6","doi-asserted-by":"publisher","first-page":"840","DOI":"10.1158\/1940-6207.CAPR-10-0389","volume":"4","author":"C Bodelon","year":"2011","unstructured":"Bodelon C, Anderson GL, Rossing MA, Chlebowski RT, Ochs-Balcom HM, Vaughan TL: Hormonal factors and risks of esophageal squamous cell carcinoma and adenocarcinoma in postmenopausal women. Cancer Prev Res (Phila). 2011, 4 (6): 840-850. 10.1158\/1940-6207.CAPR-10-0389.","journal-title":"Cancer Prev Res (Phila)"},{"issue":"14","key":"963_CR7","doi-asserted-by":"publisher","first-page":"4046","DOI":"10.1158\/1078-0432.CCR-07-0449","volume":"13","author":"T Nozoe","year":"2007","unstructured":"Nozoe T, Oyama T, Takenoyama M, Hanagiri T, Sugio K, Yasumoto K: Significance of immunohistochemical expression of estrogen receptors alpha and beta in squamous cell carcinoma of the esophagus. Clin Cancer Res. 2007, 13 (14): 4046-4050. 10.1158\/1078-0432.CCR-07-0449.","journal-title":"Clin Cancer Res"},{"issue":"22","key":"963_CR8","first-page":"7212","volume":"50","author":"H Ueo","year":"1990","unstructured":"Ueo H, Matsuoka H, Sugimachi K, Kuwano H, Mori M, Akiyoshi T: Inhibitory effects of estrogen on the growth of a human esophageal carcinoma cell line. Cancer Res. 1990, 50 (22): 7212-7215.","journal-title":"Cancer Res"},{"issue":"1","key":"963_CR9","doi-asserted-by":"publisher","first-page":"88","DOI":"10.1002\/1097-0142(19890701)64:1<88::AID-CNCR2820640116>3.0.CO;2-4","volume":"64","author":"Y Utsumi","year":"1989","unstructured":"Utsumi Y, Nakamura T, Nagasue N, Kubota H, Morikawa S: Role of estrogen receptors in the growth of human esophageal carcinoma. Cancer. 1989, 64 (1): 88-93. 10.1002\/1097-0142(19890701)64:1<88::AID-CNCR2820640116>3.0.CO;2-4.","journal-title":"Cancer"},{"issue":"3","key":"963_CR10","doi-asserted-by":"publisher","first-page":"523","DOI":"10.1158\/1535-7163.MCT-09-0845","volume":"9","author":"S Kambhampati","year":"2010","unstructured":"Kambhampati S, Banerjee S, Dhar K, Mehta S, Haque I, Dhar G, Majumder M, Ray G, Vanveldhuizen PJ, Banerjee SK: 2-methoxyestradiol inhibits Barrett\u2019s esophageal adenocarcinoma growth and differentiation through differential regulation of the beta-catenin-E-cadherin axis. Mol Cancer Ther. 2010, 9 (3): 523-534. 10.1158\/1535-7163.MCT-09-0845.","journal-title":"Mol Cancer Ther"},{"issue":"1","key":"963_CR11","doi-asserted-by":"publisher","first-page":"188","DOI":"10.1007\/s12032-010-9457-8","volume":"28","author":"QM Wang","year":"2011","unstructured":"Wang QM, Qi YJ, Jiang Q, Ma YF, Wang LD: Relevance of serum estradiol and estrogen receptor beta expression from a high-incidence area for esophageal squamous cell carcinoma in China. Med Oncol. 2011, 28 (1): 188-193. 10.1007\/s12032-010-9457-8.","journal-title":"Med Oncol"},{"key":"963_CR12","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1186\/1477-7819-8-9","volume":"8","author":"F Rashid","year":"2010","unstructured":"Rashid F, Khan RN, Iftikhar SY: Probing the link between oestrogen receptors and oesophageal cancer. World J Surg Oncol. 2010, 8: 9-10.1186\/1477-7819-8-9.","journal-title":"World J Surg Oncol"},{"issue":"7","key":"963_CR13","first-page":"HY19","volume":"16","author":"QM Wang","year":"2010","unstructured":"Wang QM, Yuan L, Qi YJ, Ma ZY, Wang LD: Estrogen analogues: promising target for prevention and treatment of esophageal squamous cell carcinoma in high risk areas. Medical science monitor: international medical journal of experimental and clinical research. 2010, 16 (7): HY19-HY22.","journal-title":"Medical science monitor: international medical journal of experimental and clinical research"},{"issue":"14","key":"963_CR14","doi-asserted-by":"publisher","first-page":"2905","DOI":"10.1093\/nar\/29.14.2905","volume":"29","author":"CM Klinge","year":"2001","unstructured":"Klinge CM: Estrogen receptor interaction with estrogen response elements. Nucleic Acids Res. 2001, 29 (14): 2905-2919. 10.1093\/nar\/29.14.2905.","journal-title":"Nucleic Acids Res"},{"issue":"10","key":"963_CR15","doi-asserted-by":"publisher","first-page":"1486","DOI":"10.1210\/me.11.10.1486","volume":"11","author":"K Pettersson","year":"1997","unstructured":"Pettersson K, Grandien K, Kuiper GG, Gustafsson JA: Mouse estrogen receptor beta forms estrogen response element-binding heterodimers with estrogen receptor alpha. Mol Endocrinol. 1997, 11 (10): 1486-1496. 10.1210\/me.11.10.1486.","journal-title":"Mol Endocrinol"},{"issue":"1","key":"963_CR16","doi-asserted-by":"publisher","first-page":"263","DOI":"10.1006\/geno.1993.1320","volume":"17","author":"LP Menasce","year":"1993","unstructured":"Menasce LP, White GR, Harrison CJ, Boyle JM: Localization of the estrogen receptor locus (ESR) to chromosome 6q25.1 by FISH and a simple post-FISH banding technique. Genomics. 1993, 17 (1): 263-265. 10.1006\/geno.1993.1320.","journal-title":"Genomics"},{"issue":"12","key":"963_CR17","doi-asserted-by":"publisher","first-page":"4258","DOI":"10.1210\/jc.82.12.4258","volume":"82","author":"E Enmark","year":"1997","unstructured":"Enmark E, Pelto-Huikko M, Grandien K, Lagercrantz S, Lagercrantz J, Fried G, Nordenskjold M, Gustafsson JA: Human estrogen receptor beta-gene structure, chromosomal localization, and expression pattern. J Clin Endocrinol Metab. 1997, 82 (12): 4258-4265. 10.1210\/jc.82.12.4258.","journal-title":"J Clin Endocrinol Metab"},{"issue":"6","key":"963_CR18","doi-asserted-by":"publisher","first-page":"597","DOI":"10.1016\/S0006-2952(98)00355-4","volume":"57","author":"SM Hyder","year":"1999","unstructured":"Hyder SM, Chiappetta C, Stancel GM: Interaction of human estrogen receptors alpha and beta with the same naturally occurring estrogen response elements. Biochem Pharmacol. 1999, 57 (6): 597-601. 10.1016\/S0006-2952(98)00355-4.","journal-title":"Biochem Pharmacol"},{"issue":"27","key":"963_CR19","doi-asserted-by":"publisher","first-page":"24353","DOI":"10.1074\/jbc.M201829200","volume":"277","author":"MM Liu","year":"2002","unstructured":"Liu MM, Albanese C, Anderson CM, Hilty K, Webb P, Uht RM, Price RH, Pestell RG, Kushner PJ: Opposing action of estrogen receptors alpha and beta on cyclin D1 gene expression. J Biol Chem. 2002, 277 (27): 24353-24360. 10.1074\/jbc.M201829200.","journal-title":"J Biol Chem"},{"issue":"2","key":"963_CR20","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1677\/erc.0.0100193","volume":"10","author":"SI Hayashi","year":"2003","unstructured":"Hayashi SI, Eguchi H, Tanimoto K, Yoshida T, Omoto Y, Inoue A, Yoshida N, Yamaguchi Y: The expression and function of estrogen receptor alpha and beta in human breast cancer and its clinical application. Endocr Relat Cancer. 2003, 10 (2): 193-202. 10.1677\/erc.0.0100193.","journal-title":"Endocr Relat Cancer"},{"issue":"10","key":"963_CR21","first-page":"595","volume":"55","author":"T Onita","year":"2009","unstructured":"Onita T, Igawa T, Hisamatsu H, Sakai H, Kanetake H: Secondary endocrine therapy with oral estrogen for relapsed prostate cancer. Hinyokika Kiyo. 2009, 55 (10): 595-598.","journal-title":"Hinyokika Kiyo"},{"issue":"12","key":"963_CR22","doi-asserted-by":"publisher","first-page":"829","DOI":"10.1093\/jjco\/hyp096","volume":"39","author":"PH Wang","year":"2009","unstructured":"Wang PH, Wang HC, Tsai CC: Estrogen replacement in female lung cancer during gefitinib therapy. Jpn J Clin Oncol. 2009, 39 (12): 829-832. 10.1093\/jjco\/hyp096.","journal-title":"Jpn J Clin Oncol"},{"issue":"5","key":"963_CR23","doi-asserted-by":"publisher","first-page":"927","DOI":"10.1007\/s00280-010-1242-z","volume":"66","author":"RJ Morgan","year":"2010","unstructured":"Morgan RJ, Synold T, Mamelak A, Lim D, Al-Kadhimi Z, Twardowski P, Leong L, Chow W, Margolin K, Shibata S, et al.: Plasma and cerebrospinal fluid pharmacokinetics of topotecan in a phase I trial of topotecan, tamoxifen, and carboplatin, in the treatment of recurrent or refractory brain or spinal cord tumors. Cancer Chemother Pharmacol. 2010, 66 (5): 927-933. 10.1007\/s00280-010-1242-z.","journal-title":"Cancer Chemother Pharmacol"},{"issue":"1","key":"963_CR24","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1038\/bjc.1952.4","volume":"6","author":"M Douglas","year":"1952","unstructured":"Douglas M: The treatment of advanced breast cancer by hormone therapy. Br J Cancer. 1952, 6 (1): 32-45. 10.1038\/bjc.1952.4.","journal-title":"Br J Cancer"},{"issue":"13","key":"963_CR25","doi-asserted-by":"publisher","first-page":"3605","DOI":"10.1093\/nar\/gkg517","volume":"31","author":"VB Bajic","year":"2003","unstructured":"Bajic VB, Tan SL, Chong A, Tang S, Strom A, Gustafsson JA, Lin CY, Liu ET: Dragon ERE Finder version 2: A tool for accurate detection and analysis of estrogen response elements in vertebrate genomes. Nucleic Acids Res. 2003, 31 (13): 3605-3607. 10.1093\/nar\/gkg517.","journal-title":"Nucleic Acids Res"},{"issue":"Database issue","key":"963_CR26","doi-asserted-by":"publisher","first-page":"D732","DOI":"10.1093\/nar\/gkl816","volume":"35","author":"S Tang","year":"2007","unstructured":"Tang S, Zhang Z, Tan SL, Tang MH, Kumar AP, Ramadoss SK, Bajic VB: KBERG: KnowledgeBase for estrogen responsive genes. Nucleic Acids Res. 2007, 35 (Database issue): D732-D736.","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"963_CR27","doi-asserted-by":"publisher","first-page":"225","DOI":"10.1677\/jme.1.01839","volume":"35","author":"VX Jin","year":"2005","unstructured":"Jin VX, Sun H, Pohar TT, Liyanarachchi S, Palaniswamy SK, Huang TH, Davuluri RV: ERTargetDB: an integral information resource of transcription regulation of estrogen receptor target genes. J Mol Endocrinol. 2005, 35 (2): 225-230. 10.1677\/jme.1.01839.","journal-title":"J Mol Endocrinol"},{"key":"963_CR28","doi-asserted-by":"publisher","first-page":"219","DOI":"10.1186\/1471-2407-9-219","volume":"9","author":"M Essack","year":"2009","unstructured":"Essack M, Radovanovic A, Schaefer U, Schmeier S, Seshadri SV, Christoffels A, Kaur M, Bajic VB: DDEC: Dragon database of genes implicated in esophageal cancer. BMC Cancer. 2009, 9: 219-10.1186\/1471-2407-9-219.","journal-title":"BMC Cancer"},{"issue":"5740","key":"963_CR29","doi-asserted-by":"publisher","first-page":"1559","DOI":"10.1126\/science.1112014","volume":"309","author":"P Carninci","year":"2005","unstructured":"Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N, Oyama R, Ravasi T, Lenhard B, Wells C, et al.: The transcriptional landscape of the mammalian genome. Science. 2005, 309 (5740): 1559-1563.","journal-title":"Science"},{"issue":"13","key":"963_CR30","doi-asserted-by":"publisher","first-page":"3576","DOI":"10.1093\/nar\/gkg585","volume":"31","author":"AE Kel","year":"2003","unstructured":"Kel AE, Gossling E, Reuter I, Cheremushkin E, Kel-Margoulis OV, Wingender E: MATCH: A tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Res. 2003, 31 (13): 3576-3579. 10.1093\/nar\/gkg585.","journal-title":"Nucleic Acids Res"},{"issue":"Database issue","key":"963_CR31","doi-asserted-by":"publisher","first-page":"D108","DOI":"10.1093\/nar\/gkj143","volume":"34","author":"V Matys","year":"2006","unstructured":"Matys V, Kel-Margoulis OV, Fricke E, Liebich I, Land S, Barre-Dirrie A, Reuter I, Chekmenev D, Krull M, Hornischer K, et al.: TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes. Nucleic Acids Res. 2006, 34 (Database issue): D108-D110.","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"963_CR32","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1093\/nar\/29.1.281","volume":"29","author":"E Wingender","year":"2001","unstructured":"Wingender E, Chen X, Fricke E, Geffers R, Hehl R, Liebich I, Krull M, Matys V, Michael H, Ohnhauser R, et al.: The TRANSFAC system on gene expression regulation. Nucleic Acids Res. 2001, 29 (1): 281-283. 10.1093\/nar\/29.1.281.","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"963_CR33","doi-asserted-by":"crossref","first-page":"374","DOI":"10.2144\/03342mt01","volume":"34","author":"AI Saeed","year":"2003","unstructured":"Saeed AI, Sharov V, White J, Li J, Liang W, Bhagabati N, Braisted J, Klapa M, Currier T, Thiagarajan M, et al.: TM4: a free, open-source system for microarray data management and analysis. Biotechniques. 2003, 34 (2): 374-378.","journal-title":"Biotechniques"},{"key":"963_CR34","doi-asserted-by":"publisher","first-page":"134","DOI":"10.1016\/S0076-6879(06)11009-5","volume":"411","author":"AI Saeed","year":"2006","unstructured":"Saeed AI, Bhagabati NK, Braisted JC, Liang W, Sharov V, Howe EA, Li J, Thiagarajan M, White JA, Quackenbush J: TM4 microarray software suite. Methods Enzymol. 2006, 411: 134-193.","journal-title":"Methods Enzymol"},{"issue":"2","key":"963_CR35","doi-asserted-by":"publisher","first-page":"168","DOI":"10.1165\/rcmb.2007-0377OC","volume":"40","author":"HJ Choi","year":"2009","unstructured":"Choi HJ, Chung YS, Kim HJ, Moon UY, Choi YH, Van Seuningen I, Baek SJ, Yoon HG, Yoon JH: Signal pathway of 17beta-estradiol-induced MUC5B expression in human airway epithelial cells. Am J Respir Cell Mol Biol. 2009, 40 (2): 168-178.","journal-title":"Am J Respir Cell Mol Biol"},{"issue":"1","key":"963_CR36","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1016\/j.jvs.2008.07.080","volume":"49","author":"OH Grandas","year":"2009","unstructured":"Grandas OH, Mountain DH, Kirkpatrick SS, Cassada DC, Stevens SL, Freeman MB, Goldman MH: Regulation of vascular smooth muscle cell expression and function of matrix metalloproteinases is mediated by estrogen and progesterone exposure. J Vasc Surg. 2009, 49 (1): 185-191. 10.1016\/j.jvs.2008.07.080.","journal-title":"J Vasc Surg"},{"issue":"4","key":"963_CR37","doi-asserted-by":"publisher","first-page":"e5153","DOI":"10.1371\/journal.pone.0005153","volume":"4","author":"O Varea","year":"2009","unstructured":"Varea O, Garrido JJ, Dopazo A, Mendez P, Garcia-Segura LM, Wandosell F: Estradiol activates beta-catenin dependent transcription in neurons. PLoS One. 2009, 4 (4): e5153-10.1371\/journal.pone.0005153.","journal-title":"PLoS One"},{"issue":"3","key":"963_CR38","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1016\/j.nlm.2008.09.017","volume":"91","author":"AS Pechenino","year":"2009","unstructured":"Pechenino AS, Frick KM: The effects of acute 17beta-estradiol treatment on gene expression in the young female mouse hippocampus. Neurobiol Learn Mem. 2009, 91 (3): 315-322. 10.1016\/j.nlm.2008.09.017.","journal-title":"Neurobiol Learn Mem"},{"issue":"7","key":"963_CR39","first-page":"2535","volume":"29","author":"JC Lai","year":"2009","unstructured":"Lai JC, Wu JY, Cheng YW, Yeh KT, Wu TC, Chen CY, Lee H: O6-Methylguanine-DNA methyltransferase hypermethylation modulated by 17beta-estradiol in lung cancer cells. Anticancer Res. 2009, 29 (7): 2535-2540.","journal-title":"Anticancer Res"},{"issue":"1","key":"963_CR40","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1158\/0008-5472.CAN-08-3492","volume":"69","author":"SA Ochsner","year":"2009","unstructured":"Ochsner SA, Steffen DL, Hilsenbeck SG, Chen ES, Watkins C, McKenna NJ: GEMS (Gene Expression MetaSignatures), a Web resource for querying meta-analysis of expression microarray datasets: 17beta-estradiol in MCF-7 cells. Cancer Res. 2009, 69 (1): 23-26. 10.1158\/0008-5472.CAN-08-3492.","journal-title":"Cancer Res"},{"issue":"5","key":"963_CR41","doi-asserted-by":"publisher","first-page":"989","DOI":"10.1095\/biolreprod.108.075416","volume":"80","author":"K Hayashi","year":"2009","unstructured":"Hayashi K, Erikson DW, Tilford SA, Bany BM, Maclean JA, Rucker EB, Johnson GA, Spencer TE: Wnt genes in the mouse uterus: potential regulation of implantation. Biol Reprod. 2009, 80 (5): 989-1000. 10.1095\/biolreprod.108.075416.","journal-title":"Biol Reprod"},{"issue":"1","key":"963_CR42","doi-asserted-by":"publisher","first-page":"110","DOI":"10.1177\/0192623309354108","volume":"38","author":"SV Fernandez","year":"2010","unstructured":"Fernandez SV, Russo J: Estrogen and xenoestrogens in breast cancer. Toxicol Pathol. 2010, 38 (1): 110-122. 10.1177\/0192623309354108.","journal-title":"Toxicol Pathol"},{"issue":"4","key":"963_CR43","doi-asserted-by":"publisher","first-page":"e10164","DOI":"10.1371\/journal.pone.0010164","volume":"5","author":"KA Baltgalvis","year":"2010","unstructured":"Baltgalvis KA, Greising SM, Warren GL, Lowe DA: Estrogen regulates estrogen receptors and antioxidant gene expression in mouse skeletal muscle. PLoS One. 2010, 5 (4): e10164-10.1371\/journal.pone.0010164.","journal-title":"PLoS One"},{"key":"963_CR44","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1186\/1755-8794-4-41","volume":"4","author":"SH Lam","year":"2011","unstructured":"Lam SH, Lee SG, Lin CY, Thomsen JS, Fu PY, Murthy KR, Li H, Govindarajan KR, Nick LC, Bourque G, et al.: Molecular conservation of estrogen-response associated with cell cycle regulation, hormonal carcinogenesis and cancer in zebrafish and human cancer cell lines. BMC Med Genomics. 2011, 4: 41-10.1186\/1755-8794-4-41.","journal-title":"BMC Med Genomics"},{"issue":"11","key":"963_CR45","doi-asserted-by":"publisher","first-page":"e14026","DOI":"10.1371\/journal.pone.0014026","volume":"5","author":"MS Weiss","year":"2010","unstructured":"Weiss MS, Penalver Bernabe B, Bellis AD, Broadbelt LJ, Jeruss JS, Shea LD: Dynamic, large-scale profiling of transcription factor activity from live cells in 3D culture. PLoS One. 2010, 5 (11): e14026-10.1371\/journal.pone.0014026.","journal-title":"PLoS One"},{"issue":"3","key":"963_CR46","doi-asserted-by":"publisher","first-page":"964","DOI":"10.1002\/jcp.22803","volume":"227","author":"C Abbondanza","year":"2012","unstructured":"Abbondanza C, De Rosa C, D\u2019Arcangelo A, Pacifico M, Spizuoco C, Piluso G, Di Zazzo E, Gazzerro P, Medici N, Moncharmont B, et al.: Identification of a functional estrogen-responsive enhancer element in the promoter 2 of PRDM2 gene in breast cancer cell lines. J Cell Physiol. 2012, 227 (3): 964-975. 10.1002\/jcp.22803.","journal-title":"J Cell Physiol"},{"issue":"1","key":"963_CR47","doi-asserted-by":"publisher","first-page":"R3","DOI":"10.1186\/bcr2804","volume":"13","author":"A Brekman","year":"2011","unstructured":"Brekman A, Singh KE, Polotskaia A, Kundu N, Bargonetti J: A p53-independent role of Mdm2 in estrogen-mediated activation of breast cancer cell proliferation. Breast Cancer Res. 2011, 13 (1): R3-10.1186\/bcr2804.","journal-title":"Breast Cancer Res"},{"issue":"18","key":"963_CR48","doi-asserted-by":"publisher","first-page":"1065","DOI":"10.1152\/physiolgenomics.00228.2010","volume":"43","author":"AS Pechenino","year":"2011","unstructured":"Pechenino AS, Lin L, Mbai FN, Lee AR, He XM, Stallone JN, Knowlton AA: Impact of aging vs. Estrogen loss on cardiac gene expression: estrogen replacement and inflammation. Physiol Genomics. 2011, 43 (18): 1065-1073. 10.1152\/physiolgenomics.00228.2010.","journal-title":"Physiol Genomics"},{"issue":"1","key":"963_CR49","doi-asserted-by":"publisher","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, et al.: Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1. Cell. 2005, 122 (1): 33-43. 10.1016\/j.cell.2005.05.008.","journal-title":"Cell"},{"issue":"6","key":"963_CR50","doi-asserted-by":"publisher","first-page":"1411","DOI":"10.1210\/me.2003-0441","volume":"18","author":"V Bourdeau","year":"2004","unstructured":"Bourdeau V, Deschenes J, Metivier R, Nagai Y, Nguyen D, Bretschneider N, Gannon F, White JH, Mader S: Genome-wide identification of high-affinity estrogen response elements in human and mouse. Mol Endocrinol. 2004, 18 (6): 1411-1427. 10.1210\/me.2003-0441.","journal-title":"Mol Endocrinol"},{"issue":"4","key":"963_CR51","doi-asserted-by":"publisher","first-page":"465","DOI":"10.1016\/S0092-8674(02)00641-4","volume":"108","author":"NJ McKenna","year":"2002","unstructured":"McKenna NJ, O\u2019Malley BW: Combinatorial control of gene expression by nuclear receptors and coregulators. Cell. 2002, 108 (4): 465-474. 10.1016\/S0092-8674(02)00641-4.","journal-title":"Cell"},{"key":"963_CR52","doi-asserted-by":"publisher","first-page":"337","DOI":"10.1186\/1471-2164-9-337","volume":"9","author":"K Eisermann","year":"2008","unstructured":"Eisermann K, Tandon S, Bazarov A, Brett A, Fraizer G, Piontkivska H: Evolutionary conservation of zinc finger transcription factor binding sites in promoters of genes co-expressed with WT1 in prostate cancer. BMC Genomics. 2008, 9: 337-10.1186\/1471-2164-9-337.","journal-title":"BMC Genomics"},{"issue":"1","key":"963_CR53","doi-asserted-by":"publisher","first-page":"73","DOI":"10.1111\/j.1432-1033.1995.073_1.x","volume":"233","author":"K Ikeda","year":"1995","unstructured":"Ikeda K, Kawakami K: DNA binding through distinct domains of zinc-finger-homeodomain protein AREB6 has different effects on gene transcription. Eur J Biochem. 1995, 233 (1): 73-82. 10.1111\/j.1432-1033.1995.073_1.x.","journal-title":"Eur J Biochem"},{"issue":"9\u201310","key":"963_CR54","doi-asserted-by":"publisher","first-page":"593","DOI":"10.1016\/j.bbaexp.2007.07.005","volume":"1769","author":"L Cheng","year":"2007","unstructured":"Cheng L, Li L, Qiao X, Liu J, Yao X: Functional characterization of the promoter of human kinetochore protein HEC1: novel link between regulation of the cell cycle protein and CREB family transcription factors. Biochim Biophys Acta. 2007, 1769 (9\u201310): 593-602.","journal-title":"Biochim Biophys Acta"},{"issue":"1","key":"963_CR55","doi-asserted-by":"publisher","first-page":"456","DOI":"10.1128\/MCB.14.1.456","volume":"14","author":"S Paca-Uccaralertkun","year":"1994","unstructured":"Paca-Uccaralertkun S, Zhao LJ, Adya N, Cross JV, Cullen BR, Boros IM, Giam CZ: In vitro selection of DNA elements highly responsive to the human T-cell lymphotropic virus type I transcriptional activator, Tax. Mol Cell Biol. 1994, 14 (1): 456-462.","journal-title":"Mol Cell Biol"},{"issue":"7","key":"963_CR56","doi-asserted-by":"publisher","first-page":"912","DOI":"10.1038\/modpathol.2008.82","volume":"21","author":"M Singh","year":"2008","unstructured":"Singh M, Spoelstra NS, Jean A, Howe E, Torkko KC, Clark HR, Darling DS, Shroyer KR, Horwitz KB, Broaddus RR, et al.: ZEB1 expression in type I vs type II endometrial cancers: a marker of aggressive disease. Mod Pathol. 2008, 21 (7): 912-923. 10.1038\/modpathol.2008.82.","journal-title":"Mod Pathol"},{"issue":"6","key":"963_CR57","doi-asserted-by":"publisher","first-page":"1248","DOI":"10.1111\/j.1525-1438.2007.01177.x","volume":"18","author":"NM Linnerth","year":"2008","unstructured":"Linnerth NM, Greenaway JB, Petrik JJ, Moorehead RA: cAMP response element-binding protein is expressed at high levels in human ovarian adenocarcinoma and regulates ovarian tumor cell proliferation. Int J Gynecol Cancer. 2008, 18 (6): 1248-1257. 10.1111\/j.1525-1438.2007.01177.x.","journal-title":"Int J Gynecol Cancer"},{"issue":"3","key":"963_CR58","doi-asserted-by":"publisher","first-page":"171","DOI":"10.1385\/IJGC:35:3:171","volume":"35","author":"T Khoury","year":"2005","unstructured":"Khoury T, Chadha K, Javle M, Donohue K, Levea C, Iyer R, Okada H, Nagase H, Tan D: Expression of intestinal trefoil factor (TFF-3) in hepatocellular carcinoma. Int J Gastrointest Cancer. 2005, 35 (3): 171-177. 10.1385\/IJGC:35:3:171.","journal-title":"Int J Gastrointest Cancer"},{"issue":"5688","key":"963_CR59","doi-asserted-by":"publisher","first-page":"1286","DOI":"10.1126\/science.1097937","volume":"305","author":"J Zhang","year":"2004","unstructured":"Zhang J, Kalkum M, Yamamura S, Chait BT, Roeder RG: E protein silencing by the leukemogenic AML1-ETO fusion protein. Science. 2004, 305 (5688): 1286-1289. 10.1126\/science.1097937.","journal-title":"Science"},{"issue":"2","key":"963_CR60","doi-asserted-by":"publisher","first-page":"430","DOI":"10.1016\/j.febslet.2008.12.042","volume":"583","author":"Y Adachi","year":"2009","unstructured":"Adachi Y, Takeuchi T, Nagayama T, Ohtsuki Y, Furihata M: Zeb1-mediated T-cadherin repression increases the invasive potential of gallbladder cancer. FEBS Lett. 2009, 583 (2): 430-436. 10.1016\/j.febslet.2008.12.042.","journal-title":"FEBS Lett"},{"issue":"37","key":"963_CR61","doi-asserted-by":"publisher","first-page":"33818","DOI":"10.1074\/jbc.M205159200","volume":"277","author":"K Roy","year":"2002","unstructured":"Roy K, de la Serna IL, Imbalzano AN: The myogenic basic helix-loop-helix family of transcription factors shows similar requirements for SWI\/SNF chromatin remodeling enzymes during muscle differentiation in culture. J Biol Chem. 2002, 277 (37): 33818-33824. 10.1074\/jbc.M205159200.","journal-title":"J Biol Chem"},{"issue":"5","key":"963_CR62","doi-asserted-by":"publisher","first-page":"2161","DOI":"10.1128\/JVI.75.5.2161-2173.2001","volume":"75","author":"KV Kibler","year":"2001","unstructured":"Kibler KV, Jeang KT: CREB\/ATF-dependent repression of cyclin a by human T-cell leukemia virus type 1 Tax protein. J Virol. 2001, 75 (5): 2161-2173. 10.1128\/JVI.75.5.2161-2173.2001.","journal-title":"J Virol"},{"issue":"Database issue","key":"963_CR63","first-page":"D637","volume":"36","author":"BJ Breitkreutz","year":"2008","unstructured":"Breitkreutz BJ, Stark C, Reguly T, Boucher L, Breitkreutz A, Livstone M, Oughtred R, Lackner DH, Bahler J, Wood V, et al.: The BioGRID interaction database: 2008 update. Nucleic Acids Res. 2008, 36 (Database issue): D637-D640.","journal-title":"Nucleic Acids Res"},{"issue":"19","key":"963_CR64","doi-asserted-by":"publisher","first-page":"2513","DOI":"10.1038\/sj.onc.1201783","volume":"16","author":"D Rubino","year":"1998","unstructured":"Rubino D, Driggers P, Arbit D, Kemp L, Miller B, Coso O, Pagliai K, Gray K, Gutkind S, Segars J: Characterization of Brx, a novel Dbl family member that modulates estrogen receptor action. Oncogene. 1998, 16 (19): 2513-2526. 10.1038\/sj.onc.1201783.","journal-title":"Oncogene"},{"issue":"14","key":"963_CR65","doi-asserted-by":"publisher","first-page":"9118","DOI":"10.1074\/jbc.M509339200","volume":"281","author":"T Kino","year":"2006","unstructured":"Kino T, Souvatzoglou E, Charmandari E, Ichijo T, Driggers P, Mayers C, Alatsatianos A, Manoli I, Westphal H, Chrousos GP, et al.: Rho family Guanine nucleotide exchange factor Brx couples extracellular signals to the glucocorticoid signaling system. J Biol Chem. 2006, 281 (14): 9118-9126.","journal-title":"J Biol Chem"},{"issue":"50","key":"963_CR66","doi-asserted-by":"publisher","first-page":"46792","DOI":"10.1074\/jbc.M106927200","volume":"276","author":"PH Driggers","year":"2001","unstructured":"Driggers PH, Segars JH, Rubino DM: The proto-oncoprotein Brx activates estrogen receptor beta by a p38 mitogen-activated protein kinase pathway. J Biol Chem. 2001, 276 (50): 46792-46797. 10.1074\/jbc.M106927200.","journal-title":"J Biol Chem"},{"issue":"10","key":"963_CR67","doi-asserted-by":"publisher","first-page":"1455","DOI":"10.1016\/j.ejca.2006.02.012","volume":"42","author":"A Faried","year":"2006","unstructured":"Faried A, Faried LS, Kimura H, Nakajima M, Sohda M, Miyazaki T, Kato H, Usman N, Kuwano H: RhoA and RhoC proteins promote both cell proliferation and cell invasion of human oesophageal squamous cell carcinoma cell lines in vitro and in vivo. Eur J Cancer. 2006, 42 (10): 1455-1465. 10.1016\/j.ejca.2006.02.012.","journal-title":"Eur J Cancer"},{"issue":"5","key":"963_CR68","doi-asserted-by":"publisher","first-page":"P3","DOI":"10.1186\/gb-2003-4-5-p3","volume":"4","author":"G Dennis Jr","year":"2003","unstructured":"Dennis G, Sherman BT, Hosack DA, Yang J, Gao W, Lane HC, Lempicki RA: DAVID: database for annotation, visualization, and integrated discovery. Genome Biol. 2003, 4 (5): P3-10.1186\/gb-2003-4-5-p3.","journal-title":"Genome Biol"},{"issue":"23","key":"963_CR69","doi-asserted-by":"publisher","first-page":"8056","DOI":"10.1128\/MCB.21.23.8056-8067.2001","volume":"21","author":"ZQ Ma","year":"2001","unstructured":"Ma ZQ, Liu Z, Ngan ES, Tsai SY: Cdc25B functions as a novel coactivator for the steroid receptors. Mol Cell Biol. 2001, 21 (23): 8056-8067. 10.1128\/MCB.21.23.8056-8067.2001.","journal-title":"Mol Cell Biol"},{"issue":"2","key":"963_CR70","doi-asserted-by":"publisher","first-page":"154","DOI":"10.1145\/6497.214326","volume":"12","author":"CR Mehta","year":"1986","unstructured":"Mehta CR, Patel NR: Algorithm 643. FEXACT: A Fortran subroutine for fisher\u2019s exact test on unordered rxc contingency tables. ACM Trans Math Softw. 1986, 12 (2): 154-161. 10.1145\/6497.214326.","journal-title":"ACM Trans Math Softw"},{"issue":"1\u20132","key":"963_CR71","doi-asserted-by":"publisher","first-page":"279","DOI":"10.1016\/S0166-4328(01)00297-2","volume":"125","author":"Y Benjamini","year":"2001","unstructured":"Benjamini Y, Drai D, Elmer G, Kafkafi N, Golani I: Controlling the false discovery rate in behavior genetics research. Behavioural brain research. 2001, 125 (1\u20132): 279-284.","journal-title":"Behavioural brain research"}],"container-title":["BMC Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1752-0509-6-135.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T20:24:38Z","timestamp":1630527878000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcsystbiol.biomedcentral.com\/articles\/10.1186\/1752-0509-6-135"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,10,26]]},"references-count":71,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2012,12]]}},"alternative-id":["963"],"URL":"https:\/\/doi.org\/10.1186\/1752-0509-6-135","relation":{},"ISSN":["1752-0509"],"issn-type":[{"value":"1752-0509","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,10,26]]},"assertion":[{"value":"1 May 2012","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"18 October 2012","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"26 October 2012","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"135"}}