메뉴 건너뛰기




Volumn 102, Issue 1, 2010, Pages 61-69

Circadian transcription in liver

Author keywords

Circadian clock; Clock controlled genes; DNA array; Transcription factor binding site

Indexed keywords

BIOINFORMATICS; CIRCADIAN RHYTHM; DATA SET; ESTROGENIC COMPOUND; GENE EXPRESSION; RODENT; SERUM;

EID: 77957274364     PISSN: 03032647     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biosystems.2010.07.010     Document Type: Article
Times cited : (16)

References (53)
  • 3
    • 34250370060 scopus 로고    scopus 로고
    • Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE)
    • Bhinge A.A., Kim J., Euskirchen G.M., Snyder M., Iyer V.R. Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE). Genome Res. 2007, 17:910-916.
    • (2007) Genome Res. , vol.17 , pp. 910-916
    • Bhinge, A.A.1    Kim, J.2    Euskirchen, G.M.3    Snyder, M.4    Iyer, V.R.5
  • 4
    • 34250305146 scopus 로고    scopus 로고
    • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    • (ENCODE Project Consortium)
    • Birney E., et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007, 214:799-816. (ENCODE Project Consortium).
    • (2007) Nature , vol.214 , pp. 799-816
    • Birney, E.1
  • 8
    • 56649103933 scopus 로고    scopus 로고
    • Stra13/DEC1 and DEC2 inhibit sterol regulatory element binding protein-1c in a hypoxia-inducible factor-dependent mechanism
    • Choi S.M., Cho H.J., Cho H., Kim K.H., Kim J.B., Park H. Stra13/DEC1 and DEC2 inhibit sterol regulatory element binding protein-1c in a hypoxia-inducible factor-dependent mechanism. Nucleic Acids Res. 2008, 36:6372-6385.
    • (2008) Nucleic Acids Res. , vol.36 , pp. 6372-6385
    • Choi, S.M.1    Cho, H.J.2    Cho, H.3    Kim, K.H.4    Kim, J.B.5    Park, H.6
  • 9
    • 33846890433 scopus 로고    scopus 로고
    • Serum response factor binding sites differ in three human cell types
    • Cooper S., Trinklein N.D., Nguyen L., Myers R.M. Serum response factor binding sites differ in three human cell types. Genome Res. 2007, 17:136-144.
    • (2007) Genome Res. , vol.17 , pp. 136-144
    • Cooper, S.1    Trinklein, N.D.2    Nguyen, L.3    Myers, R.M.4
  • 10
    • 0037426839 scopus 로고    scopus 로고
    • Rhythmic histone acetylation underlies transcription in the mammalian circadian clock
    • Etchegaray J.P., Lee C., Wade P.A., Reppert S.M. Rhythmic histone acetylation underlies transcription in the mammalian circadian clock. Nature 2003, 421:177-182.
    • (2003) Nature , vol.421 , pp. 177-182
    • Etchegaray, J.P.1    Lee, C.2    Wade, P.A.3    Reppert, S.M.4
  • 11
    • 65149083962 scopus 로고    scopus 로고
    • The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
    • The FANTOM Consortium, Riken Omics Science Center
    • The FANTOM Consortium, Riken Omics Science Center The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nature Genet. 2009, 41:553-562.
    • (2009) Nature Genet. , vol.41 , pp. 553-562
  • 13
    • 4444363082 scopus 로고    scopus 로고
    • Orthogonal analysis of C/EBPbeta targets in vivo during liver proliferation
    • Friedman J.R., Larris B., Le P.P., Harshani T. Orthogonal analysis of C/EBPbeta targets in vivo during liver proliferation. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:12986-12991.
    • (2004) Proc. Natl. Acad. Sci. U.S.A. , vol.101 , pp. 12986-12991
    • Friedman, J.R.1    Larris, B.2    Le, P.P.3    Harshani, T.4
  • 14
    • 62649122865 scopus 로고    scopus 로고
    • A ChIP-chip approach reveals a novel role for transcription factor IRF1 in the DNA damage response
    • Frontini M., Vijayakumar M., Garvin M., Clarke N. A ChIP-chip approach reveals a novel role for transcription factor IRF1 in the DNA damage response. Nucleic Acids Res. 2009, 37:1073-1085.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 1073-1085
    • Frontini, M.1    Vijayakumar, M.2    Garvin, M.3    Clarke, N.4
  • 15
    • 24944460267 scopus 로고    scopus 로고
    • Differential control of Bmal1 circadian transcription by REV-ERB and ROR nuclear receptors
    • Guillaumond F., Dardente H., Giguère V., Cermakian N. Differential control of Bmal1 circadian transcription by REV-ERB and ROR nuclear receptors. J. Biol. Rhythms 2005, 20:391-403.
    • (2005) J. Biol. Rhythms , vol.20 , pp. 391-403
    • Guillaumond, F.1    Dardente, H.2    Giguère, V.3    Cermakian, N.4
  • 18
    • 34250159524 scopus 로고    scopus 로고
    • Genome-wide mapping of in vivo protein-DNA interactions
    • Johnson D.S., Mortazavi A., Myers R.M., Wold B. Genome-wide mapping of in vivo protein-DNA interactions. Science 2007, 316:1497-1502.
    • (2007) Science , vol.316 , pp. 1497-1502
    • Johnson, D.S.1    Mortazavi, A.2    Myers, R.M.3    Wold, B.4
  • 19
    • 27644499659 scopus 로고    scopus 로고
    • Measuring similarities between transcription factor binding sites
    • Kiełbasa S.M., Gonze D., Herzel H. Measuring similarities between transcription factor binding sites. BMC Bioinform. 2005, 6:237.
    • (2005) BMC Bioinform. , vol.6 , pp. 237
    • Kiełbasa, S.M.1    Gonze, D.2    Herzel, H.3
  • 20
    • 18744380399 scopus 로고    scopus 로고
    • Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment
    • Kim J., Bhinge A.A., Morgan X.C., Iyer V.R. Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment. Nat. Methods 2005, 2:47-53.
    • (2005) Nat. Methods , vol.2 , pp. 47-53
    • Kim, J.1    Bhinge, A.A.2    Morgan, X.C.3    Iyer, V.R.4
  • 21
    • 46349099384 scopus 로고    scopus 로고
    • Global identification of Myc target genes reveals its direct role in mitochondrial biogenesis and its E-box usage in vivo
    • Kim J., Lee J., Iyer V.R. Global identification of Myc target genes reveals its direct role in mitochondrial biogenesis and its E-box usage in vivo. PLoS ONE 2008, 3:e1798.
    • (2008) PLoS ONE , vol.3
    • Kim, J.1    Lee, J.2    Iyer, V.R.3
  • 22
    • 33846944676 scopus 로고    scopus 로고
    • System-driven and oscillator-dependent circadian transcription in mice with a conditionally active liver clock
    • Kornmann B., Schaad O., Bujard H., Takahashi J.S., Schibler U. System-driven and oscillator-dependent circadian transcription in mice with a conditionally active liver clock. PLoS Biol. 2007, 5:e34.
    • (2007) PLoS Biol. , vol.5
    • Kornmann, B.1    Schaad, O.2    Bujard, H.3    Takahashi, J.S.4    Schibler, U.5
  • 24
    • 33847075354 scopus 로고    scopus 로고
    • Circadian rhythms: mechanisms and therapeutic implications
    • Levi F., Schibler U. Circadian rhythms: mechanisms and therapeutic implications. Annu. Rev. Pharmacol. Toxicol. 2007, 47:593-628.
    • (2007) Annu. Rev. Pharmacol. Toxicol. , vol.47 , pp. 593-628
    • Levi, F.1    Schibler, U.2
  • 26
    • 34547569191 scopus 로고    scopus 로고
    • STAMP: a web tool for exploring DNA-binding motif similarities
    • Mahony S., Benos P.V. STAMP: a web tool for exploring DNA-binding motif similarities. Nucleic Acids Res. 2007, 35:W253-W258.
    • (2007) Nucleic Acids Res. , vol.35
    • Mahony, S.1    Benos, P.V.2
  • 30
    • 0035871311 scopus 로고    scopus 로고
    • Antagonistic role of E4BP4 and PAR proteins in the circadian oscillatory mechanism
    • Mitsui S., Yamaguchi S., Matsuo T., Ishida Y., Okamura H. Antagonistic role of E4BP4 and PAR proteins in the circadian oscillatory mechanism. Genes Dev. 2001, 15:995-1006.
    • (2001) Genes Dev. , vol.15 , pp. 995-1006
    • Mitsui, S.1    Yamaguchi, S.2    Matsuo, T.3    Ishida, Y.4    Okamura, H.5
  • 33
    • 2942558697 scopus 로고    scopus 로고
    • On the power of profiles for transcription factor binding site detection
    • Rahmann S., Müller T., Vingron M. On the power of profiles for transcription factor binding site detection. Stat. Appl. Genet. Mol. Biol. 2003, 2:Article7.
    • (2003) Stat. Appl. Genet. Mol. Biol. , vol.2
    • Rahmann, S.1    Müller, T.2    Vingron, M.3
  • 34
    • 38949209515 scopus 로고    scopus 로고
    • Differential display of DNA-binding proteins reveals heat-shock factor 1 as a circadian transcription factor
    • Reinke H., Saini C., Fleury-Olela F., Dibner C., Benjamin I.J., Schibler U. Differential display of DNA-binding proteins reveals heat-shock factor 1 as a circadian transcription factor. Genes Dev. 2008, 22:331-345.
    • (2008) Genes Dev. , vol.22 , pp. 331-345
    • Reinke, H.1    Saini, C.2    Fleury-Olela, F.3    Dibner, C.4    Benjamin, I.J.5    Schibler, U.6
  • 35
    • 0037080483 scopus 로고    scopus 로고
    • E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints
    • Ren B., Cam H., Takahashi Y., Volkert T., Terragni J., Young R.A., Dynlacht B.D. E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. Genes Dev. 2002, 16:245-256.
    • (2002) Genes Dev. , vol.16 , pp. 245-256
    • Ren, B.1    Cam, H.2    Takahashi, Y.3    Volkert, T.4    Terragni, J.5    Young, R.A.6    Dynlacht, B.D.7
  • 37
    • 33846700587 scopus 로고    scopus 로고
    • Predicting transcription factor affinities to DNA from a biophysical model
    • Roider H.G., Kanhere A., Manke T., Vingron M. Predicting transcription factor affinities to DNA from a biophysical model. Bioinformatics 2007, 23:134-141.
    • (2007) Bioinformatics , vol.23 , pp. 134-141
    • Roider, H.G.1    Kanhere, A.2    Manke, T.3    Vingron, M.4
  • 38
    • 3242891274 scopus 로고    scopus 로고
    • ConSite: web-based prediction of regulatory elements using cross-species comparison
    • Sandelin A., Wassermann W.W., Lenhard B. ConSite: web-based prediction of regulatory elements using cross-species comparison. Nucleic Acids Res. 2004, 32:W249-W252.
    • (2004) Nucleic Acids Res. , vol.32
    • Sandelin, A.1    Wassermann, W.W.2    Lenhard, B.3
  • 39
    • 33646858607 scopus 로고    scopus 로고
    • A temporal map of transcription factor activity: MEF-2 directly regulates target genes at all stages of muscle development
    • Sandmann T., Jensen L.J., Jakobsen J.S., Karzynski M.M., Eichenlaub M.P., Bork P., Furlong E.E.M. A temporal map of transcription factor activity: MEF-2 directly regulates target genes at all stages of muscle development. Dev. Cell 2006, 10:797-807.
    • (2006) Dev. Cell , vol.10 , pp. 797-807
    • Sandmann, T.1    Jensen, L.J.2    Jakobsen, J.S.3    Karzynski, M.M.4    Eichenlaub, M.P.5    Bork, P.6    Furlong, E.E.M.7
  • 40
    • 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, 451:535-540.
    • (2008) Nature , vol.451 , pp. 535-540
    • Segal, E.1    Raveh-Sadka, T.2    Schroeder, M.3    Unnerstall, U.4    Gaul, U.5
  • 41
    • 28444479802 scopus 로고    scopus 로고
    • Identification of target genes of the transcription factor HNF1β and HNFα in a human embryonic kidney cell line
    • Senkel S., Lucas B., Klein-Hitpass L., Ryffel G.U. Identification of target genes of the transcription factor HNF1β and HNFα in a human embryonic kidney cell line. Biochim. Biophys. Acta 2005, 1731:179-190.
    • (2005) Biochim. Biophys. Acta , vol.1731 , pp. 179-190
    • Senkel, S.1    Lucas, B.2    Klein-Hitpass, L.3    Ryffel, G.U.4
  • 45
    • 52149109334 scopus 로고    scopus 로고
    • The genetics of mammalian circadian order and disorder: implications for physiology and disease
    • Takahashi J.S., Hong H.K., Ko C.H., McDearmon E.L. The genetics of mammalian circadian order and disorder: implications for physiology and disease. Nat. Rev. Genet. 2008, 9:764-775.
    • (2008) Nat. Rev. Genet. , vol.9 , pp. 764-775
    • Takahashi, J.S.1    Hong, H.K.2    Ko, C.H.3    McDearmon, E.L.4
  • 48
    • 1842584947 scopus 로고    scopus 로고
    • Applied bioinformatics for the identification of regulatory elements
    • Wasserman W.W., Sandelin A. Applied bioinformatics for the identification of regulatory elements. Nat. Rev. Genet. 2004, 5:276-287.
    • (2004) Nat. Rev. Genet. , vol.5 , pp. 276-287
    • Wasserman, W.W.1    Sandelin, A.2
  • 50
    • 0037080674 scopus 로고    scopus 로고
    • Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis
    • Weinmann A.S., Yan P.S., Oberley M.J., Huang T.H., Farnham P.J. Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis. Genes Dev. 2002, 16:235-244.
    • (2002) Genes Dev. , vol.16 , pp. 235-244
    • Weinmann, A.S.1    Yan, P.S.2    Oberley, M.J.3    Huang, T.H.4    Farnham, P.J.5
  • 51
    • 35949000033 scopus 로고    scopus 로고
    • A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members
    • Xu X., Bieda M., Jin V.X., Rabinovich A., Oberley M.J., Green R., Farnham P.J. A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members. Genome Res. 2007, 17:1550-1561.
    • (2007) Genome Res. , vol.17 , pp. 1550-1561
    • Xu, X.1    Bieda, M.2    Jin, V.X.3    Rabinovich, A.4    Oberley, M.J.5    Green, R.6    Farnham, P.J.7
  • 52
    • 55449106027 scopus 로고    scopus 로고
    • Analysis of gene regulatory networks in the mammalian circadian rhythm
    • Yan J., Wang H., Liu Y., Shao C. Analysis of gene regulatory networks in the mammalian circadian rhythm. PLoS Comput. Biol. 2008, 4:e1000193.
    • (2008) PLoS Comput. Biol. , vol.4
    • Yan, J.1    Wang, H.2    Liu, Y.3    Shao, C.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.