메뉴 건너뛰기




Volumn 13, Issue 1, 2012, Pages

Transcription factor co-localization patterns affect human cell type-specific gene expression

Author keywords

ChIP Seq; Gene expression; Regression modeling; Transcriptional regulation

Indexed keywords

DNA FRAGMENT; PROTEIN FOS; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR TAF1; TRANSCRIPTION FACTOR YY1; UNCLASSIFIED DRUG;

EID: 84862486755     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-263     Document Type: Article
Times cited : (17)

References (40)
  • 3
    • 34250305146 scopus 로고    scopus 로고
    • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    • Consortium TEP
    • Consortium TEP Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007, 447(7146):799-816. [http://dx.doi.org/10.1038/nature05874], Consortium TEP.
    • (2007) Nature , vol.447 , Issue.7146 , pp. 799-816
  • 7
    • 0035135420 scopus 로고    scopus 로고
    • Regulatory element detection using correlation with expression
    • Bussemaker HJ, Li H, Siggia ED. Regulatory element detection using correlation with expression. Nat Genet 2001, 27(2):167-174. [http://dx.doi.org/10.1038/84792].
    • (2001) Nat Genet , vol.27 , Issue.2 , pp. 167-174
    • Bussemaker, H.J.1    Li, H.2    Siggia, E.D.3
  • 8
    • 0037453009 scopus 로고    scopus 로고
    • Integrating regulatory motif discovery and genome-wide expression analysis
    • Conlon EM, Liu XS, Lieb JD, Liu JS. Integrating regulatory motif discovery and genome-wide expression analysis. Proc Nat Acad Sci USA 2003, 100(6):3339-3344. [http://www.pnas.org/content/100/6/3339.abstract].
    • (2003) Proc Nat Acad Sci USA , vol.100 , Issue.6 , pp. 3339-3344
    • Conlon, E.M.1    Liu, X.S.2    Lieb, J.D.3    Liu, J.S.4
  • 9
    • 33745440791 scopus 로고    scopus 로고
    • Adaptively inferring human transcriptional subnetworks
    • Das D, Nahle Z, Zhang MQ. Adaptively inferring human transcriptional subnetworks. Mol Syst Biol 2006, 2. [http://dx.doi.org/10.1038/msb4100067].
    • (2006) Mol Syst Biol , vol.2
    • Das, D.1    Nahle, Z.2    Zhang, M.Q.3
  • 10
    • 38749127589 scopus 로고    scopus 로고
    • Predicting expression patterns from regulatory sequence in Drosophila segmentation
    • Segal E, Raveh-Sadka T, Schroeder M, Unnerstall U, Gaul U. Predicting expression patterns from regulatory sequence in Drosophila segmentation. Nature 2008, 451(7178):535-540. [http://dx.doi.org/10.1038/nature06496].
    • (2008) Nature , vol.451 , Issue.7178 , pp. 535-540
    • Segal, E.1    Raveh-Sadka, T.2    Schroeder, M.3    Unnerstall, U.4    Gaul, U.5
  • 11
    • 77954586080 scopus 로고    scopus 로고
    • A quantitative model of transcriptional regulation reveals the influence of binding location on expression
    • MacIsaac KD, Lo KA, Gordon W, Motola S, Mazor T, Fraenkel E. A quantitative model of transcriptional regulation reveals the influence of binding location on expression. PLoS Comput Biol 2010, 6(4):e1000773. [http://dx.doi.org/10.1371/journal.pcbi.1000773].
    • (2010) PLoS Comput Biol , vol.6 , Issue.4
    • MacIsaac, K.D.1    Lo, K.A.2    Gordon, W.3    Motola, S.4    Mazor, T.5    Fraenkel, E.6
  • 12
    • 76049125511 scopus 로고    scopus 로고
    • ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells
    • Ouyang Z, Zhou Q, Wong WH. ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells. Proc Nat Acad Sci 2009, 106(51):21521-21526. [http://www.pnas.org/content/106/51/21521.abstract].
    • (2009) Proc Nat Acad Sci , vol.106 , Issue.51 , pp. 21521-21526
    • Ouyang, Z.1    Zhou, Q.2    Wong, W.H.3
  • 13
    • 70449132583 scopus 로고    scopus 로고
    • Combinatorial binding predicts spatio-temporal cis-regulatory activity
    • Zinzen RP, Girardot C, Gagneur J, Braun M, Furlong EEM. Combinatorial binding predicts spatio-temporal cis-regulatory activity. Nature 2009, 462(7269):65-70. [http://dx.doi.org/10.1038/nature08531].
    • (2009) Nature , vol.462 , Issue.7269 , pp. 65-70
    • Zinzen, R.P.1    Girardot, C.2    Gagneur, J.3    Braun, M.4    Furlong, E.E.M.5
  • 14
    • 35348903151 scopus 로고    scopus 로고
    • Transcriptional control of erythropoiesis: emerging mechanisms and principles
    • Kim S, Bresnick EH. Transcriptional control of erythropoiesis: emerging mechanisms and principles. Oncogene 2009, 26(47):6777-6794. [http://dx.doi.org/10.1038/sj.onc.1210761].
    • (2009) Oncogene , vol.26 , Issue.47 , pp. 6777-6794
    • Kim, S.1    Bresnick, E.H.2
  • 16
    • 77649268269 scopus 로고    scopus 로고
    • Close association of RNA polymerase II and many transcription factors with Pol III genes
    • Raha D, Wang Z, Moqtaderi Z, Wu L, Zhong G, Gerstein M, Struhl K, Snyder M. Close association of RNA polymerase II and many transcription factors with Pol III genes. Proc Nat Acad Sci 2010, 107(8):3639-3644. [http://www.pnas.org/content/107/8/3639.abstract].
    • (2010) Proc Nat Acad Sci , vol.107 , Issue.8 , pp. 3639-3644
    • Raha, D.1    Wang, Z.2    Moqtaderi, Z.3    Wu, L.4    Zhong, G.5    Gerstein, M.6    Struhl, K.7    Snyder, M.8
  • 17
    • 79955971604 scopus 로고    scopus 로고
    • The developmental regulator protein Gon4l associates with protein YY1, Co-repressor Sin3a, and Histone Deacetylase 1 and mediates transcriptional repression
    • Lu P, Hankel IL, Hostager BS, Swartzendruber JA, Friedman AD, Brenton JL, Rothman PB, Colgan JD. The developmental regulator protein Gon4l associates with protein YY1, Co-repressor Sin3a, and Histone Deacetylase 1 and mediates transcriptional repression. J Biol Chem 2011, 286(20):18311-18319. [http://www.jbc.org/content/286/20/18311.abstract].
    • (2011) J Biol Chem , vol.286 , Issue.20 , pp. 18311-18319
    • Lu, P.1    Hankel, I.L.2    Hostager, B.S.3    Swartzendruber, J.A.4    Friedman, A.D.5    Brenton, J.L.6    Rothman, P.B.7    Colgan, J.D.8
  • 18
    • 33644507479 scopus 로고    scopus 로고
    • Transcription factor YY1: structure, function, and therapeutic implications in cancer biology
    • Gordon S, Akopyan G, Garban H, Bonavida B. Transcription factor YY1: structure, function, and therapeutic implications in cancer biology. Oncogene 2005, 25(8):1125-1142. [http://dx.doi.org/10.1038/sj.onc.1209080].
    • (2005) Oncogene , vol.25 , Issue.8 , pp. 1125-1142
    • Gordon, S.1    Akopyan, G.2    Garban, H.3    Bonavida, B.4
  • 21
    • 62549128139 scopus 로고    scopus 로고
    • A census of human transcription factors: function, expression and evolution
    • Vaquerizas JM, Kummerfeld SK, Teichmann SA, Luscombe NM. A census of human transcription factors: function, expression and evolution. Nat Rev Genet 2009, 10(4):252-263. [http://dx.doi.org/10.1038/nrg2538].
    • (2009) Nat Rev Genet , vol.10 , Issue.4 , pp. 252-263
    • Vaquerizas, J.M.1    Kummerfeld, S.K.2    Teichmann, S.A.3    Luscombe, N.M.4
  • 27
    • 0020628246 scopus 로고
    • Different requirements for Ia-bearing accessory cells in mitogen versus antigen induction of human B-cell responses
    • Gerrard TL, Bonnard GD, Fauci AS. Different requirements for Ia-bearing accessory cells in mitogen versus antigen induction of human B-cell responses. Cell Immunol 1983, 78:64-72. [http://www.sciencedirect.com/science/article/pii/0008874983902605].
    • (1983) Cell Immunol , vol.78 , pp. 64-72
    • Gerrard, T.L.1    Bonnard, G.D.2    Fauci, A.S.3
  • 28
    • 0026665523 scopus 로고
    • Transcriptional activation by the human c-Myc oncoprotein in yeast requires interaction with Max
    • Amati B, Dalton S, Brooks MW, Littlewood TD, Evan GI, Land H. Transcriptional activation by the human c-Myc oncoprotein in yeast requires interaction with Max. Nature 1992, 359(6394):423-426. [http://dx.doi.org/10.1038/359423a0].
    • (1992) Nature , vol.359 , Issue.6394 , pp. 423-426
    • Amati, B.1    Dalton, S.2    Brooks, M.W.3    Littlewood, T.D.4    Evan, G.I.5    Land, H.6
  • 29
    • 77953992497 scopus 로고    scopus 로고
    • Dynamic CRM occupancy reflects a temporal map of developmental progression
    • Wilczynski B, Furlong EEM. Dynamic CRM occupancy reflects a temporal map of developmental progression. Mol Syst Biol 2010, 6. [http://dx.doi.org/10.1038/msb.2010.35].
    • (2010) Mol Syst Biol , vol.6
    • Wilczynski, B.1    Furlong, E.E.M.2
  • 30
    • 79960449665 scopus 로고    scopus 로고
    • Correlation between LRIG1 and LRIG2 expressions and expression of 11 tumor markers, with special reference to tumor suppressors, in CIN and normal cervical epithelium
    • [PMID:21632100
    • Lindström AK, Asplund A, Hellberg D. Correlation between LRIG1 and LRIG2 expressions and expression of 11 tumor markers, with special reference to tumor suppressors, in CIN and normal cervical epithelium. Gynecologic Oncol 2011, 122(2):372-376. [http://www.ncbi.nlm.nih.gov/pubmed/21632100]. [PMID:21632100].
    • (2011) Gynecologic Oncol , vol.122 , Issue.2 , pp. 372-376
    • Lindström, A.K.1    Asplund, A.2    Hellberg, D.3
  • 31
    • 67649826220 scopus 로고    scopus 로고
    • From DNA sequence to transcriptional behaviour: a quantitative approach
    • Segal E, Widom J. From DNA sequence to transcriptional behaviour: a quantitative approach. Nat Rev Genet 2009, 10(7):443-456. [http://dx.doi.org/10.1038/nrg2591].
    • (2009) Nat Rev Genet , vol.10 , Issue.7 , pp. 443-456
    • Segal, E.1    Widom, J.2
  • 34
    • 77649246145 scopus 로고    scopus 로고
    • Histone modification levels are predictive for gene expression
    • Karlic R, Chung H, Lasserre J, Vlahovicek K, Vingron M. Histone modification levels are predictive for gene expression. Proc Nat Acad Sci 2010, 107(7):2926-2931. [http://www.pnas.org/content/107/7/2926.abstract].
    • (2010) Proc Nat Acad Sci , vol.107 , Issue.7 , pp. 2926-2931
    • Karlic, R.1    Chung, H.2    Lasserre, J.3    Vlahovicek, K.4    Vingron, M.5
  • 37
    • 33846326493 scopus 로고    scopus 로고
    • Cooperation between Myc and YY1 provides novel silencing transcriptional targets of [alpha]3[beta]1-integrin in tumour cells
    • de Nigris F, Botti C, Rossiello R, Crimi E, Sica V, Napoli C. Cooperation between Myc and YY1 provides novel silencing transcriptional targets of [alpha]3[beta]1-integrin in tumour cells. Oncogene 2006, 26(3):382-394. [http://dx.doi.org/10.1038/sj.onc.1209804].
    • (2006) Oncogene , vol.26 , Issue.3 , pp. 382-394
    • de Nigris, F.1    Botti, C.2    Rossiello, R.3    Crimi, E.4    Sica, V.5    Napoli, C.6
  • 38
    • 0029052418 scopus 로고
    • Transcriptional repression of the c-fos gene by YY1 is mediated by a direct interaction with ATF/CREB
    • Zhou Q, Gedrich RW, Engel DA. Transcriptional repression of the c-fos gene by YY1 is mediated by a direct interaction with ATF/CREB. J Virol 1995, 69(7):4323-4330.
    • (1995) J Virol , vol.69 , Issue.7 , pp. 4323-4330
    • Zhou, Q.1    Gedrich, R.W.2    Engel, D.A.3
  • 39
    • 0034905085 scopus 로고    scopus 로고
    • Regulation of transcription factor YY1 by acetylation and deacetylation
    • [PMID: 11486036 PMCID: PMC87316]
    • Yao Y, Yang W, Seto E. Regulation of transcription factor YY1 by acetylation and deacetylation. Mol Cell Biol 2001, 21(17):5979-5991. [PMID: 11486036 PMCID: PMC87316].
    • (2001) Mol Cell Biol , vol.21 , Issue.17 , pp. 5979-5991
    • Yao, Y.1    Yang, W.2    Seto, E.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.