메뉴 건너뛰기




Volumn 18, Issue 3, 2008, Pages 477-488

Systematic functional characterization of cis-regulatory motifs in human core promoters

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA;

EID: 40449124692     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.6828808     Document Type: Article
Times cited : (50)

References (42)
  • 3
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y. and Hochberg, Y. 1995. Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B 57: 289-300.
    • (1995) J. R. Stat. Soc. Ser. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 4
    • 0036204443 scopus 로고    scopus 로고
    • Promoter-specific regulation of MyoD binding and signal transduction cooperate to pattern gene expression
    • Bergstrom, D.A., Penn, B.H., Strand, A., Perry, R.L., Rudnicki, M.A., and Tapscott, S.J. 2002. Promoter-specific regulation of MyoD binding and signal transduction cooperate to pattern gene expression. Mol. Cell 9: 587-600.
    • (2002) Mol. Cell , vol.9 , pp. 587-600
    • Bergstrom, D.A.1    Penn, B.H.2    Strand, A.3    Perry, R.L.4    Rudnicki, M.A.5    Tapscott, S.J.6
  • 5
    • 0037154273 scopus 로고    scopus 로고
    • Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome
    • Berman, B.P., Nibu, Y., Pfeiffer, B.D., Tomancak, P., Celniker, S.E., Levine, M., Rubin, G.M., and Eisen, M.B. 2002. Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome. Proc. Natl. Acad. Sci. 99: 757-762.
    • (2002) Proc. Natl. Acad. Sci , vol.99 , pp. 757-762
    • Berman, B.P.1    Nibu, Y.2    Pfeiffer, B.D.3    Tomancak, P.4    Celniker, S.E.5    Levine, M.6    Rubin, G.M.7    Eisen, M.B.8
  • 7
    • 33644674789 scopus 로고    scopus 로고
    • A systematic model to predict transcriptional regulatory mechanisms based on over-representation of transcription factor binding profiles
    • Chang, L.W., Nagarajan, R., Magee, J.A., Milbrandt, J., and Stormo, G.D. 2006. A systematic model to predict transcriptional regulatory mechanisms based on over-representation of transcription factor binding profiles. Genome Res. 16: 405-413.
    • (2006) Genome Res , vol.16 , pp. 405-413
    • Chang, L.W.1    Nagarajan, R.2    Magee, J.A.3    Milbrandt, J.4    Stormo, G.D.5
  • 9
    • 24044505984 scopus 로고    scopus 로고
    • Transcriptional regulation: Cancer, neurons and the REST
    • Coulson, J.M. 2005. Transcriptional regulation: Cancer, neurons and the REST. Curr. Biol. 15: R665-R668.
    • (2005) Curr. Biol , vol.15
    • Coulson, J.M.1
  • 10
    • 33645094387 scopus 로고    scopus 로고
    • Silencing or knocking out eukaryotic gene expression by oligodeoxynucleotide decoys
    • Cutroneo, K.R. and Ehrlich, H. 2006. Silencing or knocking out eukaryotic gene expression by oligodeoxynucleotide decoys. Crit. Rev. Eukaryot. Gene Expr. 16: 23-30.
    • (2006) Crit. Rev. Eukaryot. Gene Expr , vol.16 , pp. 23-30
    • Cutroneo, K.R.1    Ehrlich, H.2
  • 11
    • 0036578644 scopus 로고    scopus 로고
    • GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways
    • Dahlquist, K.D., Salomonis, N., Vranizan, K., Lawlor, S.C., and Conklin, B.R. 2002. GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways. Nat. Genet. 31: 19-20.
    • (2002) Nat. Genet , vol.31 , pp. 19-20
    • Dahlquist, K.D.1    Salomonis, N.2    Vranizan, K.3    Lawlor, S.C.4    Conklin, B.R.5
  • 12
    • 33748047128 scopus 로고    scopus 로고
    • RB and cell cycle progression
    • Giacinti, C. and Giordano, A. 2006. RB and cell cycle progression. Oncogene 25: 5220-5227.
    • (2006) Oncogene , vol.25 , pp. 5220-5227
    • Giacinti, C.1    Giordano, A.2
  • 13
    • 0037250915 scopus 로고    scopus 로고
    • Regulation and co-ordination of nuclear gene expression during mitochondrial biogenesis
    • Goffart, S. and Wiesner, R.J. 2003. Regulation and co-ordination of nuclear gene expression during mitochondrial biogenesis. Exp. Physiol. 88: 33-40.
    • (2003) Exp. Physiol , vol.88 , pp. 33-40
    • Goffart, S.1    Wiesner, R.J.2
  • 14
    • 30344439849 scopus 로고    scopus 로고
    • Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity
    • Hallikas, O., Palin, K., Sinjushina, N., Rautiainen, R., Partanen, J., Ukkonen, E., and Taipale, J. 2006. Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity. Cell 124: 47-59.
    • (2006) Cell , vol.124 , pp. 47-59
    • Hallikas, O.1    Palin, K.2    Sinjushina, N.3    Rautiainen, R.4    Partanen, J.5    Ukkonen, E.6    Taipale, J.7
  • 15
    • 4444376712 scopus 로고    scopus 로고
    • Signaling to NF-κB
    • Hayden, M.S. and Ghosh, S. 2004. Signaling to NF-κB. Genes & Dev. 18: 2195-2224.
    • (2004) Genes & Dev , vol.18 , pp. 2195-2224
    • Hayden, M.S.1    Ghosh, S.2
  • 18
    • 0038349948 scopus 로고    scopus 로고
    • Sequencing and comparison of yeast species to identify genes and regulatory elements
    • Kellis, M., Patterson, N., Endrizzi, M., Birren, B., and Lander, E.S. 2003. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-254.
    • (2003) Nature , vol.423 , pp. 241-254
    • Kellis, M.1    Patterson, N.2    Endrizzi, M.3    Birren, B.4    Lander, E.S.5
  • 20
    • 11844278458 scopus 로고    scopus 로고
    • Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
    • Lewis, B.P., Burge, C.B., and Bartel, D.P. 2005. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120: 15-20.
    • (2005) Cell , vol.120 , pp. 15-20
    • Lewis, B.P.1    Burge, C.B.2    Bartel, D.P.3
  • 23
    • 0031297298 scopus 로고    scopus 로고
    • The heat-shock response: Regulation and function of heat-shock proteins and molecular chaperones
    • Morimoto, R.I., Kline, M.P., Bimston, D.N., and Cotto, J.J. 1997. The heat-shock response: Regulation and function of heat-shock proteins and molecular chaperones. Essays Biochem. 32: 17-29.
    • (1997) Essays Biochem , vol.32 , pp. 17-29
    • Morimoto, R.I.1    Kline, M.P.2    Bimston, D.N.3    Cotto, J.J.4
  • 25
  • 26
    • 85047699837 scopus 로고    scopus 로고
    • E2Fs up-regulate expression of genes involved in DNA replication, DNA repair and mitosis
    • Polager, S., Kalma, Y., Berkovich, E., and Ginsberg, D. 2002. E2Fs up-regulate expression of genes involved in DNA replication, DNA repair and mitosis. Oncogene 21: 437-446.
    • (2002) Oncogene , vol.21 , pp. 437-446
    • Polager, S.1    Kalma, Y.2    Berkovich, E.3    Ginsberg, D.4
  • 28
    • 3042694117 scopus 로고    scopus 로고
    • Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression
    • Rhodes, D.R., Yu, J., Shanker, K., Deshpande, N., Varambally, R., Ghosh, D., Barrette, T., Pandey, A., and Chinnaiyan, A.M. 2004. Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression. Proc. Natl. Acad. Sci. 101: 9309-9314.
    • (2004) Proc. Natl. Acad. Sci , vol.101 , pp. 9309-9314
    • Rhodes, D.R.1    Yu, J.2    Shanker, K.3    Deshpande, N.4    Varambally, R.5    Ghosh, D.6    Barrette, T.7    Pandey, A.8    Chinnaiyan, A.M.9
  • 30
    • 0038342441 scopus 로고    scopus 로고
    • Acute mutation of retinoblastoma gene function is sufficient for cell cycle re-entry
    • Sage, J., Miller, A.L., Perez-Mancera, P.A., Wysocki, J.M., and Jacks, T. 2003. Acute mutation of retinoblastoma gene function is sufficient for cell cycle re-entry. Nature 424: 223-228.
    • (2003) Nature , vol.424 , pp. 223-228
    • Sage, J.1    Miller, A.L.2    Perez-Mancera, P.A.3    Wysocki, J.M.4    Jacks, T.5
  • 31
    • 31944432339 scopus 로고    scopus 로고
    • A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters
    • Saxonov, S., Berg, P., and Brutlag, D.L. 2006. A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proc. Natl. Acad. Sci. 103: 1412-1417.
    • (2006) Proc. Natl. Acad. Sci , vol.103 , pp. 1412-1417
    • Saxonov, S.1    Berg, P.2    Brutlag, D.L.3
  • 34
    • 6944244084 scopus 로고    scopus 로고
    • A module map showing conditional activity of expression modules in cancer
    • Segal, E., Friedman, N., Koller, D., and Regev, A. 2004. A module map showing conditional activity of expression modules in cancer. Nat. Genet. 36: 1090-1098.
    • (2004) Nat. Genet , vol.36 , pp. 1090-1098
    • Segal, E.1    Friedman, N.2    Koller, D.3    Regev, A.4
  • 35
    • 1042264827 scopus 로고    scopus 로고
    • A probabilistic method to detect regulatory modules
    • Sinha, S., van Nimwegen, E., and Siggia, E.D. 2003. A probabilistic method to detect regulatory modules. Bioinformatics 19: i292-i301.
    • (2003) Bioinformatics , vol.19
    • Sinha, S.1    van Nimwegen, E.2    Siggia, E.D.3
  • 40
    • 15244358503 scopus 로고    scopus 로고
    • Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals
    • Xie, X., Lu, J., Kulbokas, E.J., Golub, T.R., Mootha, V., Lindblad-Toh, K., Lander, E.S., and Kellis, M. 2005. Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals. Nature 434: 338-345.
    • (2005) Nature , vol.434 , pp. 338-345
    • Xie, X.1    Lu, J.2    Kulbokas, E.J.3    Golub, T.R.4    Mootha, V.5    Lindblad-Toh, K.6    Lander, E.S.7    Kellis, M.8
  • 41
    • 0034684620 scopus 로고    scopus 로고
    • Signal transduction and the Ets family of transcription factors
    • Yordy, J.S. and Muise-Helmericks, R.C. 2000. Signal transduction and the Ets family of transcription factors. Oncogene 19: 6503-6513.
    • (2000) Oncogene , vol.19 , pp. 6503-6513
    • Yordy, J.S.1    Muise-Helmericks, R.C.2
  • 42
    • 25144519720 scopus 로고    scopus 로고
    • Temporal control of cell cycle gene expression mediated by E2F transcription factors
    • Zhu, W., Giangrande, P.H., and Nevins, J.R. 2005. Temporal control of cell cycle gene expression mediated by E2F transcription factors. Cell Cycle 4: 633-636.
    • (2005) Cell Cycle , vol.4 , pp. 633-636
    • Zhu, W.1    Giangrande, P.H.2    Nevins, J.R.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.