메뉴 건너뛰기




Volumn 10, Issue 1, 2014, Pages

Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression

Author keywords

cell cycle; gene regulation; mRNA degradation; mRNA turnover; periodic transcription

Indexed keywords

MESSENGER RNA; TRANSCRIPTION FACTOR; TRANSCRIPTOME;

EID: 84898640715     PISSN: None     EISSN: 17444292     Source Type: Journal    
DOI: 10.1002/msb.134886     Document Type: Article
Times cited : (71)

References (53)
  • 1
    • 0345099564 scopus 로고    scopus 로고
    • Identifying cooperatively among transcription factors controlling the cell cycle in yeast
    • DOI 10.1093/nar/gkg894
    • Banerjee N, Zhang MQ, (2003) Identifying cooperativity among transcription factors controlling the cell cycle in yeast. Nucleic Acids Res 31: 7024-7031 (Pubitemid 37508809)
    • (2003) Nucleic Acids Research , vol.31 , Issue.23 , pp. 7024-7031
    • Banerjee, N.1    Zhang, M.Q.2
  • 2
    • 79959431698 scopus 로고    scopus 로고
    • Model-based gene set analysis for Bioconductor
    • Bauer S, Robinson PN, Gagneur J, (2011) Model-based gene set analysis for Bioconductor. Bioinformatics 27: 1882-1883
    • (2011) Bioinformatics , vol.27 , pp. 1882-1883
    • Bauer, S.1    Robinson, P.N.2    Gagneur, J.3
  • 3
    • 42249094386 scopus 로고    scopus 로고
    • Systematic identification of cell cycle regulated transcription factors from microarray time series data
    • Cheng C, Li LM, (2008) Systematic identification of cell cycle regulated transcription factors from microarray time series data. BMC Genomics 9: 116
    • (2008) BMC Genomics , vol.9 , pp. 116
    • Cheng, C.1    Li, L.M.2
  • 5
    • 77950350225 scopus 로고    scopus 로고
    • A competitive transcription factor binding mechanism determines the timing of late cell cycle-dependent gene expression
    • Darieva Z, Clancy A, Bulmer R, Williams E, Pic-Taylor A, Morgan BA, Sharrocks AD, (2010) A competitive transcription factor binding mechanism determines the timing of late cell cycle-dependent gene expression. Mol Cell 38: 29-40
    • (2010) Mol Cell , vol.38 , pp. 29-40
    • Darieva, Z.1    Clancy, A.2    Bulmer, R.3    Williams, E.4    Pic-Taylor, A.5    Morgan, B.A.6    Sharrocks, A.D.7
  • 6
    • 84873620982 scopus 로고    scopus 로고
    • Complex degradation processes lead to non-exponential decay patterns and age-dependent decay rates of messenger RNA
    • Deneke C, Lipowsky R, Valleriani A, (2013) Complex degradation processes lead to non-exponential decay patterns and age-dependent decay rates of messenger RNA. PLoS ONE 8: e55442
    • (2013) PLoS ONE , vol.8
    • Deneke, C.1    Lipowsky, R.2    Valleriani, A.3
  • 8
    • 1642430571 scopus 로고    scopus 로고
    • RNase MRP Cleaves the CLB2 mRNA to Promote Cell Cycle Progression: Novel Method of mRNA Degradation
    • DOI 10.1128/MCB.24.3.945-953.2004
    • Gill T, Cai T, Aulds J, Wierzbicki S, Schmitt ME, (2004) RNase MRP cleaves the CLB2 mRNA to promote cell cycle progression: novel method of mRNA degradation. Mol Cell Biol 24: 945-953 (Pubitemid 38112160)
    • (2004) Molecular and Cellular Biology , vol.24 , Issue.3 , pp. 945-953
    • Gill, T.1    Cai, T.2    Aulds, J.3    Wierzbicki, S.4    Schmitt, M.E.5
  • 10
    • 84874600303 scopus 로고    scopus 로고
    • Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program
    • Guo X, Bernard A, Orlando DA, Haase SB, Hartemink AJ, (2013) Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program. Proc Natl Acad Sci USA 110: E968-E977
    • (2013) Proc Natl Acad Sci USA , vol.110
    • Guo, X.1    Bernard, A.2    Orlando, D.A.3    Haase, S.B.4    Hartemink, A.J.5
  • 11
    • 0033598334 scopus 로고    scopus 로고
    • Evidence that a free-running oscillator drives G1 events in the budding yeast cell cycle
    • DOI 10.1038/43930
    • Haase SB, Reed SI, (1999) Evidence that a free-running oscillator drives G1 events in the budding yeast cell cycle. Nature 401: 394-397 (Pubitemid 29454965)
    • (1999) Nature , vol.401 , Issue.6751 , pp. 394-397
    • Haase, S.B.1    Reed, S.I.2
  • 12
    • 84872000445 scopus 로고    scopus 로고
    • P-value-based regulatory motif discovery using positional weight matrices
    • Hartmann H, Guthohrlein EW, Siebert M, Luehr S, Soding J, (2013) P-value-based regulatory motif discovery using positional weight matrices. Genome Res 23: 181-194
    • (2013) Genome Res , vol.23 , pp. 181-194
    • Hartmann, H.1    Guthohrlein, E.W.2    Siebert, M.3    Luehr, S.4    Soding, J.5
  • 13
    • 34247629588 scopus 로고    scopus 로고
    • Genetic reconstruction of a functional transcriptional regulatory network
    • DOI 10.1038/ng2012, PII NG2012
    • Hu Z, Killion PJ, Iyer VR, (2007) Genetic reconstruction of a functional transcriptional regulatory network. Nat Genet 39: 683-687 (Pubitemid 46680240)
    • (2007) Nature Genetics , vol.39 , Issue.5 , pp. 683-687
    • Hu, Z.1    Killion, P.J.2    Iyer, V.R.3
  • 14
    • 1542285166 scopus 로고    scopus 로고
    • A genome-wide housekeeping role for TFIID and a highly regulated stress-related role for SAGA in Saccharomyces cerevisiae
    • DOI 10.1016/S1097-2765(04)00087-5, PII S1097276504000875
    • Huisinga KL, Pugh BF, (2004) A genome-wide housekeeping role for TFIID and a highly regulated stress-related role for SAGA in Saccharomyces cerevisiae. Mol Cell 13: 573-585 (Pubitemid 38299384)
    • (2004) Molecular Cell , vol.13 , Issue.4 , pp. 573-585
    • Huisinga, K.L.1    Pugh, B.F.2
  • 15
    • 33749535603 scopus 로고    scopus 로고
    • Co-evolution of transcriptional and post-translational cell-cycle regulation
    • DOI 10.1038/nature05186, PII NATURE05186
    • Jensen LJ, Jensen TS, de Lichtenberg U, Brunak S, Bork P, (2006) Co-evolution of transcriptional and post-translational cell-cycle regulation. Nature 443: 594-597 (Pubitemid 44527297)
    • (2006) Nature , vol.443 , Issue.7111 , pp. 594-597
    • Jensen, L.J.1    Jensen, T.S.2    De Lichtenberg, U.3    Brunak, S.4    Bork, P.5
  • 16
    • 0037343132 scopus 로고    scopus 로고
    • A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription
    • DOI 10.1093/bioinformatics/btg017
    • Johansson D, Lindgren P, Berglund A, (2003) A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription. Bioinformatics 19: 467-473 (Pubitemid 36336512)
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 467-473
    • Johansson, D.1    Lindgren, P.2    Berglund, A.3
  • 18
    • 0027501142 scopus 로고
    • A role for the transcription factors Mbp1 and Swi4 in progression from G1 to S phase
    • Koch C, Moll T, Neuberg M, Ahorn H, Nasmyth K, (1993) A role for the transcription factors Mbp1 and Swi4 in progression from G1 to S phase. Science 261: 1551-1557 (Pubitemid 23319597)
    • (1993) Science , vol.261 , Issue.5128 , pp. 1551-1557
    • Koch, C.1    Moll, T.2    Neuberg, M.3    Ahorn, H.4    Nasmyth, K.5
  • 21
    • 14844285655 scopus 로고    scopus 로고
    • Comparison of computational methods for the identification of cell cycle-regulated genes
    • DOI 10.1093/bioinformatics/bti093
    • de Lichtenberg U, Jensen LJ, Fausbøll A, Jensen TS, Bork P, Brunak S, (2005a) Comparison of computational methods for the identification of cell cycle-regulated genes. Bioinformatics 21: 1164-1171 (Pubitemid 40467941)
    • (2005) Bioinformatics , vol.21 , Issue.7 , pp. 1164-1171
    • De Lichtenberg, U.1    Jensen, L.J.2    Fausboll, A.3    Jensen, T.S.4    Bork, P.5    Brunak, S.6
  • 23
    • 1342328547 scopus 로고    scopus 로고
    • Statistical resynchronization and Bayesian detection of periodically expressed genes
    • DOI 10.1093/nar/gkh205
    • Lu X, Zhang W, Qin ZS, Kwast KE, Liu JS, (2004) Statistical resynchronization and Bayesian detection of periodically expressed genes. Nucleic Acids Res 32: 447-455 (Pubitemid 38263035)
    • (2004) Nucleic Acids Research , vol.32 , Issue.2 , pp. 447-455
    • Lu, X.1    Zhang, W.2    Qin, Z.S.3    Kwast, K.E.4    Liu, J.S.5
  • 24
    • 77951763153 scopus 로고    scopus 로고
    • Periodic cyclin-Cdk activity entrains an autonomous Cdc14 release oscillator
    • Lu Y, Cross FR, (2010) Periodic cyclin-Cdk activity entrains an autonomous Cdc14 release oscillator. Cell 141: 268-279
    • (2010) Cell , vol.141 , pp. 268-279
    • Lu, Y.1    Cross, F.R.2
  • 28
    • 84866951989 scopus 로고    scopus 로고
    • Identification of cytoplasmic capping targets reveals a role for cap homeostasis in translation and mRNA stability
    • Mukherjee C, Patil DP, Kennedy BA, Bakthavachalu B, Bundschuh R, Schoenberg DR, (2012) Identification of cytoplasmic capping targets reveals a role for cap homeostasis in translation and mRNA stability. Cell Rep 2: 674-684
    • (2012) Cell Rep , vol.2 , pp. 674-684
    • Mukherjee, C.1    Patil, D.P.2    Kennedy, B.A.3    Bakthavachalu, B.4    Bundschuh, R.5    Schoenberg, D.R.6
  • 29
    • 79961060611 scopus 로고    scopus 로고
    • Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay
    • Munchel SE, Shultzaberger RK, Takizawa N, Weis K, (2011) Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay. Mol Biol Cell 22: 2787-2795
    • (2011) Mol Biol Cell , vol.22 , pp. 2787-2795
    • Munchel, S.E.1    Shultzaberger, R.K.2    Takizawa, N.3    Weis, K.4
  • 30
    • 0034235529 scopus 로고    scopus 로고
    • DNA replication and damage checkpoints and meiotic cell cycle controls in the fission and budding yeasts
    • DOI 10.1042/0264-6021:3490001
    • Murakami H, Nurse P, (2000) DNA replication and damage checkpoints and meiotic cell cycle controls in the fission and budding yeasts. Biochem J 349: 1-12 (Pubitemid 30440158)
    • (2000) Biochemical Journal , vol.349 , Issue.1 , pp. 1-12
    • Murakami, H.1    Nurse, P.2
  • 31
  • 32
    • 33747379083 scopus 로고    scopus 로고
    • The Forkhead transcription factor Hcm1 regulates chromosome segregation genes and fills the S-phase gap in the transcriptional circuitry of the cell cycle
    • Pramila T, Wu W, Miles S, Noble WS, Breeden LL, (2006) The Forkhead transcription factor Hcm1 regulates chromosome segregation genes and fills the S-phase gap in the transcriptional circuitry of the cell cycle. Genes Dev 20: 2266-2278
    • (2006) Genes Dev , vol.20 , pp. 2266-2278
    • Pramila, T.1    Wu, W.2    Miles, S.3    Noble, W.S.4    Breeden, L.L.5
  • 34
    • 84858165145 scopus 로고    scopus 로고
    • Genome-wide structure and organization of eukaryotic pre-initiation complexes
    • Rhee HS, Pugh BF, (2012) Genome-wide structure and organization of eukaryotic pre-initiation complexes. Nature 483: 295-301
    • (2012) Nature , vol.483 , pp. 295-301
    • Rhee, H.S.1    Pugh, B.F.2
  • 35
    • 0035684378 scopus 로고    scopus 로고
    • A model for measurement error for gene expression arrays
    • DOI 10.1089/106652701753307485
    • Rocke DM, Durbin B, (2001) A model for measurement error for gene expression arrays. J Comput Biol 8: 557-569 (Pubitemid 34053496)
    • (2001) Journal of Computational Biology , vol.8 , Issue.6 , pp. 557-569
    • Rocke, D.M.1    Durbin, B.2
  • 36
    • 66449128185 scopus 로고    scopus 로고
    • Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae
    • Romero-Santacreu L, Moreno J, Perez-Ortin JE, Alepuz P, (2009) Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae. RNA 15: 1110-1120
    • (2009) RNA , vol.15 , pp. 1110-1120
    • Romero-Santacreu, L.1    Moreno, J.2    Perez-Ortin, J.E.3    Alepuz, P.4
  • 40
    • 34147194965 scopus 로고    scopus 로고
    • The Isw2 chromatin-remodeling ATPase cooperates with the Fkh2 transcription factor to repress transcription of the B-type cyclin gene CLB2
    • DOI 10.1128/MCB.01798-06
    • Sherriff JA, Kent NA, Mellor J, (2007) The Isw2 chromatin-remodeling ATPase cooperates with the Fkh2 transcription factor to repress transcription of the B-type cyclin gene CLB2. Mol Cell Biol 27: 2848-2860 (Pubitemid 46581301)
    • (2007) Molecular and Cellular Biology , vol.27 , Issue.8 , pp. 2848-2860
    • Sherriff, J.A.1    Kent, N.A.2    Mellor, J.3
  • 45
    • 84455200588 scopus 로고    scopus 로고
    • Single-molecule mRNA decay measurements reveal promoter- regulated mRNA stability in yeast
    • Trcek T, Larson DR, Moldõn A, Query CC, Singer RH, (2011) Single-molecule mRNA decay measurements reveal promoter- regulated mRNA stability in yeast. Cell 147: 1484-1497
    • (2011) Cell , vol.147 , pp. 1484-1497
    • Trcek, T.1    Larson, D.R.2    Moldõn, A.3    Query, C.C.4    Singer, R.H.5
  • 49
    • 0347093600 scopus 로고    scopus 로고
    • Identifying periodically expressed trascripts in microarry time series data
    • DOI 10.1093/bioinformatics/btg364
    • Wichert S, Fokianos K, Strimmer K, (2004) Identifying periodically expressed transcripts in microarray time series data. Bioinformatics 20: 5-20 (Pubitemid 38088335)
    • (2004) Bioinformatics , vol.20 , Issue.1 , pp. 5-20
    • Wichert, S.1    Fonkianos, K.2    Strimmer, K.3
  • 50
    • 18344386042 scopus 로고    scopus 로고
    • Cell cycle-dependent transcription in yeast: Promoters, transcription factors, and transcriptomes
    • DOI 10.1038/sj.onc.1208606
    • Wittenberg C, Reed SI, (2005) Cell cycle-dependent transcription in yeast: promoters, transcription factors, and transcriptomes. Oncogene 24: 2746-2755 (Pubitemid 40638086)
    • (2005) Oncogene , vol.24 , Issue.17 , pp. 2746-2755
    • Wittenberg, C.1    Reed, S.I.2
  • 51
    • 58149333393 scopus 로고    scopus 로고
    • Systematic identification of yeast cell cycle transcription factors using multiple data sources
    • Wu W-S, Li W-H, (2008) Systematic identification of yeast cell cycle transcription factors using multiple data sources. BMC Bioinformatics 9: 522
    • (2008) BMC Bioinformatics , vol.9 , pp. 522
    • Wu, W.-S.1    Li, W.-H.2
  • 52
    • 33751222851 scopus 로고    scopus 로고
    • Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle
    • Wu W-S, Li W-H, Chen B-S, (2006) Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle. BMC Bioinformatics 7: 421
    • (2006) BMC Bioinformatics , vol.7 , pp. 421
    • Wu, W.-S.1    Li, W.-H.2    Chen, B.-S.3
  • 53
    • 34250799719 scopus 로고    scopus 로고
    • Cdc20: A WD40 Activator for a Cell Cycle Degradation Machine
    • DOI 10.1016/j.molcel.2007.06.009, PII S1097276507003759
    • Yu H, (2007) Cdc20: a WD40 activator for a cell cycle degradation machine. Mol Cell 27: 3-16 (Pubitemid 46991390)
    • (2007) Molecular Cell , vol.27 , Issue.1 , pp. 3-16
    • Yu, H.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.