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Volumn 36, Issue 4, 2016, Pages 615-627

Genome-wide studies reveal that H3K4me3 modification in bivalent genes is dynamically regulated during the pluripotent cell cycle and stabilized upon differentiation

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE H3; HISTONE H3 LYSINE 4; UNCLASSIFIED DRUG; CHROMATIN; DNA BINDING PROTEIN; HISTONE; HISTONE LYSINE METHYLTRANSFERASE; MIXED LINEAGE LEUKEMIA PROTEIN; MLL PROTEIN, HUMAN; MLL2 PROTEIN, HUMAN; TUMOR PROTEIN;

EID: 84957875072     PISSN: 02707306     EISSN: 10985549     Source Type: Journal    
DOI: 10.1128/MCB.00877-15     Document Type: Article
Times cited : (49)

References (38)
  • 3
    • 84861870951 scopus 로고    scopus 로고
    • The COMPASS family of histone H3K4 methylases: mechanisms of regulation in development and disease pathogenesis
    • Shilatifard A. 2012. The COMPASS family of histone H3K4 methylases: mechanisms of regulation in development and disease pathogenesis. Annu Rev Biochem 81:65-95. http://dx.doi.org/10.1146/annurev-biochem-051710-134100.
    • (2012) Annu Rev Biochem , vol.81 , pp. 65-95
    • Shilatifard, A.1
  • 4
    • 84870169122 scopus 로고    scopus 로고
    • Memories from the polycomb group proteins
    • Lanzuolo C, Orlando V. 2012. Memories from the polycomb group proteins. Annu Rev Genet 46:561-589. http://dx.doi.org/10.1146/annurev-genet-110711-155603.
    • (2012) Annu Rev Genet , vol.46 , pp. 561-589
    • Lanzuolo, C.1    Orlando, V.2
  • 5
    • 84874763341 scopus 로고    scopus 로고
    • H3K4me3 interactions with TAF3 regulate preinitiation complex assembly and selective gene activation
    • Lauberth SM, Nakayama T, Wu X, Ferris AL, Tang Z, Hughes SH, Roeder RG. 2013. H3K4me3 interactions with TAF3 regulate preinitiation complex assembly and selective gene activation. Cell 152:1021-1036. http://dx.doi.org/10.1016/j.cell.2013.01.052.
    • (2013) Cell , vol.152 , pp. 1021-1036
    • Lauberth, S.M.1    Nakayama, T.2    Wu, X.3    Ferris, A.L.4    Tang, Z.5    Hughes, S.H.6    Roeder, R.G.7
  • 6
    • 84876871047 scopus 로고    scopus 로고
    • Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put
    • Simon JA, Kingston RE. 2013. Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put. Mol Cell 49:808-824. http://dx.doi.org/10.1016/j.molcel.2013.02.013.
    • (2013) Mol Cell , vol.49 , pp. 808-824
    • Simon, J.A.1    Kingston, R.E.2
  • 8
    • 34548434716 scopus 로고    scopus 로고
    • Whole-genome analysis of histone H3 lysine 4 and lysine 27 methylation in human embryonic stem cells
    • Pan G, Tian S, Nie J, Yang C, Ruotti V, Wei H, Jonsdottir GA, Stewart R, Thomson JA. 2007. Whole-genome analysis of histone H3 lysine 4 and lysine 27 methylation in human embryonic stem cells. Cell Stem Cell 1:299-312. http://dx.doi.org/10.1016/j.stem.2007.08.003.
    • (2007) Cell Stem Cell , vol.1 , pp. 299-312
    • Pan, G.1    Tian, S.2    Nie, J.3    Yang, C.4    Ruotti, V.5    Wei, H.6    Jonsdottir, G.A.7    Stewart, R.8    Thomson, J.A.9
  • 10
    • 84861982240 scopus 로고    scopus 로고
    • Bivalent histone modifications in early embryogenesis
    • Vastenhouw NL, Schier AF. 2012. Bivalent histone modifications in early embryogenesis. Curr Opin Cell Biol 24:374-386. http://dx.doi.org/10.1016/j.ceb.2012.03.009.
    • (2012) Curr Opin Cell Biol , vol.24 , pp. 374-386
    • Vastenhouw, N.L.1    Schier, A.F.2
  • 11
    • 84899633354 scopus 로고    scopus 로고
    • Genomic occupancy of Runx2 with global expression profiling identifies a novel dimension to control of osteoblastogenesis
    • Wu H, Whitfield TW, Gordon JA, Dobson JR, Tai PW, van Wijnen AJ, Stein JL, Stein GS, Lian JB. 2014. Genomic occupancy of Runx2 with global expression profiling identifies a novel dimension to control of osteoblastogenesis. Genome Biol 15:R52. http://dx.doi.org/10.1186/gb-2014-15-3-r52.
    • (2014) Genome Biol , vol.15 , pp. R52
    • Wu, H.1    Whitfield, T.W.2    Gordon, J.A.3    Dobson, J.R.4    Tai, P.W.5    van Wijnen, A.J.6    Stein, J.L.7    Stein, G.S.8    Lian, J.B.9
  • 12
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25. http://dx.doi.org/10.1186/gb-2009-10-3-r25.
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 13
    • 57449100870 scopus 로고    scopus 로고
    • Design and analysis of ChIP-seq experiments for DNA-binding proteins
    • Kharchenko PV, Tolstorukov MY, Park PJ. 2008. Design and analysis of ChIP-seq experiments for DNA-binding proteins. Nat Biotechnol 26:1351-1359. http://dx.doi.org/10.1038/nbt.1508.
    • (2008) Nat Biotechnol , vol.26 , pp. 1351-1359
    • Kharchenko, P.V.1    Tolstorukov, M.Y.2    Park, P.J.3
  • 15
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    • Huang DW, Sherman BT, Lempicki RA. 2009. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 4:44-57. http://dx.doi.org/10.1038/nprot.2008.211.
    • (2009) Nat Protoc , vol.4 , pp. 44-57
    • Huang, D.W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 16
    • 58549112996 scopus 로고    scopus 로고
    • Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
    • Huang DW, Sherman BT, Lempicki RA. 2009. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res 37:1-13. http://dx.doi.org/10.1093/nar/gkn923.
    • (2009) Nucleic Acids Res , vol.37 , pp. 1-13
    • Huang, D.W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 20
    • 72149122408 scopus 로고    scopus 로고
    • A reconfigured pattern of MLL occupancy within mitotic chromatin promotes rapid transcriptional reactivation following mitotic exit
    • Blobel GA, Kadauke S, Wang E, Lau AW, Zuber J, Chou MM, Vakoc CR. 2009. A reconfigured pattern of MLL occupancy within mitotic chromatin promotes rapid transcriptional reactivation following mitotic exit. Mol Cell 36:970-983. http://dx.doi.org/10.1016/j.molcel.2009.12.001.
    • (2009) Mol Cell , vol.36 , pp. 970-983
    • Blobel, G.A.1    Kadauke, S.2    Wang, E.3    Lau, A.W.4    Zuber, J.5    Chou, M.M.6    Vakoc, C.R.7
  • 21
    • 77649088021 scopus 로고    scopus 로고
    • Cdk2 inhibition prolongs G1 phase progression in mouse embryonic stem cells
    • Koledova Z, Kafkova LR, Calabkova L, Krystof V, Dolezel P, Divoky V. 2010. Cdk2 inhibition prolongs G1 phase progression in mouse embryonic stem cells. Stem Cells Dev 19:181-194. http://dx.doi.org/10.1089/scd.2009.0065.
    • (2010) Stem Cells Dev , vol.19 , pp. 181-194
    • Koledova, Z.1    Kafkova, L.R.2    Calabkova, L.3    Krystof, V.4    Dolezel, P.5    Divoky, V.6
  • 23
    • 4143100474 scopus 로고    scopus 로고
    • Human geminin promotes pre-RC formation and DNA replication by stabilizing CDT1 in mitosis
    • Ballabeni A, Melixetian M, Zamponi R, Masiero L, Marinoni F, Helin K. 2004. Human geminin promotes pre-RC formation and DNA replication by stabilizing CDT1 in mitosis. EMBO J 23:3122-3132. http://dx.doi.org/10.1038/sj.emboj.7600314.
    • (2004) EMBO J , vol.23 , pp. 3122-3132
    • Ballabeni, A.1    Melixetian, M.2    Zamponi, R.3    Masiero, L.4    Marinoni, F.5    Helin, K.6
  • 24
    • 84885912865 scopus 로고    scopus 로고
    • BGDB: a database of bivalent genes
    • Li Q, Lian S, Dai Z, Xiang Q, Dai X. 2013. BGDB: a database of bivalent genes. Database (Oxford) 2013:bat057. http://dx.doi.org/10.1093/database/bat057.
    • (2013) Database (Oxford , vol.2013
    • Li, Q.1    Lian, S.2    Dai, Z.3    Xiang, Q.4    Dai, X.5
  • 25
    • 84861133568 scopus 로고    scopus 로고
    • A computational pipeline for comparative ChIP-seq analyses
    • Bardet AF, He Q, Zeitlinger J, Stark A. 2011. A computational pipeline for comparative ChIP-seq analyses. Nat Protoc 7:45-61. http://dx.doi.org/10.1038/nprot.2011.420.
    • (2011) Nat Protoc , vol.7 , pp. 45-61
    • Bardet, A.F.1    He, Q.2    Zeitlinger, J.3    Stark, A.4
  • 26
    • 84862799740 scopus 로고    scopus 로고
    • MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets
    • Shao Z, Zhang Y, Yuan GC, Orkin SH, Waxman DJ. 2012. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol 13:R16. http://dx.doi.org/10.1186/gb-2012-13-3-r16.
    • (2012) Genome Biol , vol.13 , pp. R16
    • Shao, Z.1    Zhang, Y.2    Yuan, G.C.3    Orkin, S.H.4    Waxman, D.J.5
  • 30
    • 84883743029 scopus 로고    scopus 로고
    • The Mll2 branch of the COMPASS family regulates bivalent promoters in mouse embryonic stem cells
    • Hu D, Garruss AS, Gao X, Morgan MA, Cook M, Smith ER, Shilatifard A. 2013. The Mll2 branch of the COMPASS family regulates bivalent promoters in mouse embryonic stem cells. Nat Struct Mol Biol 20:1093-1097. http://dx.doi.org/10.1038/nsmb.2653.
    • (2013) Nat Struct Mol Biol , vol.20 , pp. 1093-1097
    • Hu, D.1    Garruss, A.S.2    Gao, X.3    Morgan, M.A.4    Cook, M.5    Smith, E.R.6    Shilatifard, A.7
  • 32
    • 43249116995 scopus 로고    scopus 로고
    • Coordinated regulation of transcriptional repression by the RBP2 H3K4 demethylase and Polycomb-Repressive Complex 2
    • Pasini D, Hansen KH, Christensen J, Agger K, Cloos PA, Helin K. 2008. Coordinated regulation of transcriptional repression by the RBP2 H3K4 demethylase and Polycomb-Repressive Complex 2. Genes Dev 22:1345-1355. http://dx.doi.org/10.1101/gad.470008.
    • (2008) Genes Dev , vol.22 , pp. 1345-1355
    • Pasini, D.1    Hansen, K.H.2    Christensen, J.3    Agger, K.4    Cloos, P.A.5    Helin, K.6
  • 33
    • 79951711112 scopus 로고    scopus 로고
    • Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains
    • Jiang H, Shukla A, Wang X, Chen WY, Bernstein BE, Roeder RG. 2011. Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains. Cell 144:513-525. http://dx.doi.org/10.1016/j.cell.2011.01.020.
    • (2011) Cell , vol.144 , pp. 513-525
    • Jiang, H.1    Shukla, A.2    Wang, X.3    Chen, W.Y.4    Bernstein, B.E.5    Roeder, R.G.6
  • 34
    • 84872531591 scopus 로고    scopus 로고
    • High-affinity, small-molecule peptidomimetic inhibitors of MLL1/WDR5 protein-protein interaction
    • Karatas H, Townsend EC, Cao F, Chen Y, Bernard D, Liu L, Lei M, Dou Y, Wang S. 2013. High-affinity, small-molecule peptidomimetic inhibitors of MLL1/WDR5 protein-protein interaction. J Am Chem Soc 135:669-682. http://dx.doi.org/10.1021/ja306028q.
    • (2013) J Am Chem Soc , vol.135 , pp. 669-682
    • Karatas, H.1    Townsend, E.C.2    Cao, F.3    Chen, Y.4    Bernard, D.5    Liu, L.6    Lei, M.7    Dou, Y.8    Wang, S.9
  • 35
    • 84870486815 scopus 로고    scopus 로고
    • Structural insights into inhibition of the bivalent menin-MLL interaction by small molecules in leukemia
    • Shi A, Murai MJ, He S, Lund G, Hartley T, Purohit T, Reddy G, Chruszcz M, Grembecka J, Cierpicki T. 2012. Structural insights into inhibition of the bivalent menin-MLL interaction by small molecules in leukemia. Blood 120:4461-4469. http://dx.doi.org/10.1182/blood-2012-05-429274.
    • (2012) Blood , vol.120 , pp. 4461-4469
    • Shi, A.1    Murai, M.J.2    He, S.3    Lund, G.4    Hartley, T.5    Purohit, T.6    Reddy, G.7    Chruszcz, M.8    Grembecka, J.9    Cierpicki, T.10
  • 36
    • 84884844190 scopus 로고    scopus 로고
    • The cell-cycle state of stem cells determines cell fate propensity
    • Pauklin S, Vallier L. 2013. The cell-cycle state of stem cells determines cell fate propensity. Cell 155:135-147. http://dx.doi.org/10.1016/j.cell.2013.08.031.
    • (2013) Cell , vol.155 , pp. 135-147
    • Pauklin, S.1    Vallier, L.2
  • 37
    • 73949143162 scopus 로고    scopus 로고
    • Human embryonic stem cells are pre-mitotically committed to self-renewal and acquire a lengthened G1 phase upon lineage programming
    • Becker KA, Stein JL, Lian JB, van Wijnen AJ, Stein GS. 2010. Human embryonic stem cells are pre-mitotically committed to self-renewal and acquire a lengthened G1 phase upon lineage programming. J Cell Physiol 222:103-110. http://dx.doi.org/10.1002/jcp.21925.
    • (2010) J Cell Physiol , vol.222 , pp. 103-110
    • Becker, K.A.1    Stein, J.L.2    Lian, J.B.3    van Wijnen, A.J.4    Stein, G.S.5


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