메뉴 건너뛰기




Volumn 5, Issue 12, 2010, Pages

Tiling histone H3 lysine 4 and 27 methylation in zebrafish using high-density microarrays

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE H3; LYSINE; HISTONE;

EID: 78650897163     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0015651     Document Type: Article
Times cited : (24)

References (34)
  • 1
    • 33646070846 scopus 로고    scopus 로고
    • A bivalent chromatin structure marks key developmental genes in embryonic stem cells
    • Bernstein BE, Mikkelsen TS, Xie X, Kamal M, Huebert DJ, et al. (2006) A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 125: 315-326.
    • (2006) Cell , vol.125 , pp. 315-326
    • Bernstein, B.E.1    Mikkelsen, T.S.2    Xie, X.3    Kamal, M.4    Huebert, D.J.5
  • 2
    • 34249026300 scopus 로고    scopus 로고
    • High-resolution profiling of histone methylations in the human genome
    • Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, et al. (2007) High-resolution profiling of histone methylations in the human genome. Cell 129: 823-837.
    • (2007) Cell , vol.129 , pp. 823-837
    • Barski, A.1    Cuddapah, S.2    Cui, K.3    Roh, T.Y.4    Schones, D.E.5
  • 3
    • 34547624303 scopus 로고    scopus 로고
    • Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
    • Mikkelsen TS, Ku M, Jaffe DB, Issac B, Lieberman E, et al. (2007) Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 448: 553-560.
    • (2007) Nature , vol.448 , pp. 553-560
    • Mikkelsen, T.S.1    Ku, M.2    Jaffe, D.B.3    Issac, B.4    Lieberman, E.5
  • 4
    • 51649129596 scopus 로고    scopus 로고
    • Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors
    • Mohn F, Weber M, Rebhan M, Roloff TC, Richter J, et al. (2008) Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors. Mol Cell 30: 755-766.
    • (2008) Mol Cell , vol.30 , pp. 755-766
    • Mohn, F.1    Weber, M.2    Rebhan, M.3    Roloff, T.C.4    Richter, J.5
  • 5
    • 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, et al. (2007) Whole-genome analysis of histone H3 lysine 4 and lysine 27 methylation in human embryonic stem cells. Cell Stem Cell 1: 299-312.
    • (2007) Cell Stem Cell , vol.1 , pp. 299-312
    • Pan, G.1    Tian, S.2    Nie, J.3    Yang, C.4    Ruotti, V.5
  • 6
    • 58049191558 scopus 로고    scopus 로고
    • Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation
    • Cui K, Zang C, Roh TY, Schones DE, Childs RW, et al. (2009) Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation. Cell Stem Cell 4: 80-93.
    • (2009) Cell Stem Cell , vol.4 , pp. 80-93
    • Cui, K.1    Zang, C.2    Roh, T.Y.3    Schones, D.E.4    Childs, R.W.5
  • 7
    • 77949407420 scopus 로고    scopus 로고
    • Histone H3 lysine 27 methylation asymmetry on developmentally-regulated promoters distinguish the first two lineages in mouse preimplantation embryos
    • Dahl JA, Reiner AH, Klungland A, Wakayama T, Collas P (2010) Histone H3 lysine 27 methylation asymmetry on developmentally-regulated promoters distinguish the first two lineages in mouse preimplantation embryos. PLoS ONE 5: e9150.
    • (2010) PLoS ONE , vol.5
    • Dahl, J.A.1    Reiner, A.H.2    Klungland, A.3    Wakayama, T.4    Collas, P.5
  • 8
    • 49649125042 scopus 로고    scopus 로고
    • Genome-scale DNA methylation maps of pluripotent and differentiated cells
    • Meissner A, Mikkelsen TS, Gu H, Wernig M, Hanna J, et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454: 766-770.
    • (2008) Nature , vol.454 , pp. 766-770
    • Meissner, A.1    Mikkelsen, T.S.2    Gu, H.3    Wernig, M.4    Hanna, J.5
  • 9
    • 77952917994 scopus 로고    scopus 로고
    • Chromatin environment of histone variant H3.3 revealed by quantitative imaging and genome-scale chromatin and DNA immunoprecipitation
    • Delbarre E, Jacobsen BM, Reiner AH, Sørensen AL, Küntziger T, et al. (2010) Chromatin environment of histone variant H3.3 revealed by quantitative imaging and genome-scale chromatin and DNA immunoprecipitation. Mol Biol Cell 21: 1872-1884.
    • (2010) Mol Biol Cell , vol.21 , pp. 1872-1884
    • Delbarre, E.1    Jacobsen, B.M.2    Reiner, A.H.3    Sørensen, A.L.4    Küntziger, T.5
  • 10
    • 77953521548 scopus 로고    scopus 로고
    • Promoter DNA methylation patterns of differentiated cells are largely programmed at the progenitor stage
    • Sørensen AL, Jacobsen BM, Reiner AH, Andersen IS, Collas P (2010) Promoter DNA methylation patterns of differentiated cells are largely programmed at the progenitor stage. Mol Biol Cell 21: 2066-2077.
    • (2010) Mol Biol Cell , vol.21 , pp. 2066-2077
    • Sørensen, A.L.1    Jacobsen, B.M.2    Reiner, A.H.3    Andersen, I.S.4    Collas, P.5
  • 11
    • 58849088872 scopus 로고    scopus 로고
    • Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos
    • Schuettengruber B, Ganapathi M, Leblanc B, Portoso M, Jaschek R, et al. (2009) Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos. PLoS Biol 7: e13.
    • (2009) PLoS Biol , vol.7
    • Schuettengruber, B.1    Ganapathi, M.2    Leblanc, B.3    Portoso, M.4    Jaschek, R.5
  • 12
    • 27144510368 scopus 로고    scopus 로고
    • Genome-scale profiling of histone H3.3 replacement patterns
    • Mito Y, Henikoff JG, Henikoff S (2005) Genome-scale profiling of histone H3.3 replacement patterns. Nat Genet 37: 1090-1097.
    • (2005) Nat Genet , vol.37 , pp. 1090-1097
    • Mito, Y.1    Henikoff, J.G.2    Henikoff, S.3
  • 13
    • 33947098453 scopus 로고    scopus 로고
    • Histone replacement marks the boundaries of cis-regulatory domains
    • Mito Y, Henikoff JG, Henikoff S (2007) Histone replacement marks the boundaries of cis-regulatory domains. Science 315: 1408-1411.
    • (2007) Science , vol.315 , pp. 1408-1411
    • Mito, Y.1    Henikoff, J.G.2    Henikoff, S.3
  • 14
    • 37249012276 scopus 로고    scopus 로고
    • Nucleosome destabilization in the epigenetic regulation of gene expression
    • Henikoff S (2008) Nucleosome destabilization in the epigenetic regulation of gene expression. Nat Rev Genet 9: 15-26.
    • (2008) Nat Rev Genet , vol.9 , pp. 15-26
    • Henikoff, S.1
  • 15
  • 16
    • 77952504833 scopus 로고    scopus 로고
    • ChIP-chip designs to interrogate the genome of Xenopus embryos for transcription factor binding and epigenetic regulation
    • Akkers RC, van Heeringen SJ, Manak JR, Green RD, Stunnenberg HG, et al. (2010) ChIP-chip designs to interrogate the genome of Xenopus embryos for transcription factor binding and epigenetic regulation. PLoS ONE 5: e8820.
    • (2010) PLoS ONE , vol.5
    • Akkers, R.C.1    van Heeringen, S.J.2    Manak, J.R.3    Green, R.D.4    Stunnenberg, H.G.5
  • 17
    • 33749117367 scopus 로고    scopus 로고
    • Zebrafish promoter microarrays identify actively transcribed embryonic genes
    • Wardle FC, Odom DT, Bell GW, Yuan B, Danford TW, et al. (2006) Zebrafish promoter microarrays identify actively transcribed embryonic genes. Genome Biol 7: R71.
    • (2006) Genome Biol , vol.7
    • Wardle, F.C.1    Odom, D.T.2    Bell, G.W.3    Yuan, B.4    Danford, T.W.5
  • 18
    • 77950866717 scopus 로고    scopus 로고
    • Chromatin signature of embryonic pluripotency is established during genome activation
    • Vastenhouw NL, Zhang Y, Woods IG, Imam F, Regev A, et al. (2010) Chromatin signature of embryonic pluripotency is established during genome activation. Nature 464: 922-926.
    • (2010) Nature , vol.464 , pp. 922-926
    • Vastenhouw, N.L.1    Zhang, Y.2    Woods, I.G.3    Imam, F.4    Regev, A.5
  • 19
    • 0027428885 scopus 로고
    • Characterization of a cell line derived from zebrafish (Brachydanio rerio) embryos
    • Driever W, Rangini Z (1993) Characterization of a cell line derived from zebrafish (Brachydanio rerio) embryos. In Vitro Cell Dev Biol Anim 29A: 749-754.
    • (1993) Vitro Cell Dev Biol Anim , vol.29 A , pp. 749-754
    • Driever, W.1    Rangini, Z.2
  • 23
    • 77956030589 scopus 로고    scopus 로고
    • Chromatin states of developmentally-regulated genes revealed by DNA and histone methylation patterns in zebrafish embryos
    • Lindeman LC, Winata CL, Aanes H, Mathavan S, Aleström P, et al. (2010) Chromatin states of developmentally-regulated genes revealed by DNA and histone methylation patterns in zebrafish embryos. Int J Dev Biol 54: 803-813.
    • (2010) Int J Dev Biol , vol.54 , pp. 803-813
    • Lindeman, L.C.1    Winata, C.L.2    Aanes, H.3    Mathavan, S.4    Aleström, P.5
  • 24
    • 33645381936 scopus 로고    scopus 로고
    • The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells
    • Loh YH, Wu Q, Chew JL, Vega VB, Zhang W, et al. (2006) The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells. Nat Genet 38: 431-440.
    • (2006) Nat Genet , vol.38 , pp. 431-440
    • Loh, Y.H.1    Wu, Q.2    Chew, J.L.3    Vega, V.B.4    Zhang, W.5
  • 25
    • 77957220857 scopus 로고    scopus 로고
    • Comparative epigenomic analysis of murine and human adipogenesis
    • Mikkelsen TS, Xu Z, Zhang X, Wang L, Gimble JM, et al. (2010) Comparative epigenomic analysis of murine and human adipogenesis. Cell 143: 156-169.
    • (2010) Cell , vol.143 , pp. 156-169
    • Mikkelsen, T.S.1    Xu, Z.2    Zhang, X.3    Wang, L.4    Gimble, J.M.5
  • 26
    • 37249026814 scopus 로고    scopus 로고
    • Genome-wide analysis of DNA methylation patterns
    • Zilberman D, Henikoff S (2007) Genome-wide analysis of DNA methylation patterns. Development 134: 3959-3965.
    • (2007) Development , vol.134 , pp. 3959-3965
    • Zilberman, D.1    Henikoff, S.2
  • 27
    • 55549141877 scopus 로고    scopus 로고
    • Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks
    • Zilberman D, Coleman-Derr D, Ballinger T, Henikoff S (2008) Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. Nature 456: 125-129.
    • (2008) Nature , vol.456 , pp. 125-129
    • Zilberman, D.1    Coleman-Derr, D.2    Ballinger, T.3    Henikoff, S.4
  • 28
    • 53049092465 scopus 로고    scopus 로고
    • Dynamic equilibrium and heterogeneity of mouse pluripotent stem cells with distinct functional and epigenetic states
    • Hayashi K, Lopes SM, Tang F, Surani MA (2008) Dynamic equilibrium and heterogeneity of mouse pluripotent stem cells with distinct functional and epigenetic states. Cell Stem Cell 3: 391-401.
    • (2008) Cell Stem Cell , vol.3 , pp. 391-401
    • Hayashi, K.1    Lopes, S.M.2    Tang, F.3    Surani, M.A.4
  • 29
    • 38649099445 scopus 로고    scopus 로고
    • High-resolution mapping and characterization of open chromatin across the genome
    • Boyle AP, Davis S, Shulha HP, Meltzer P, Margulies EH, et al. (2008) High-resolution mapping and characterization of open chromatin across the genome. Cell 132: 311-322.
    • (2008) Cell , vol.132 , pp. 311-322
    • Boyle, A.P.1    Davis, S.2    Shulha, H.P.3    Meltzer, P.4    Margulies, E.H.5
  • 30
    • 69449102464 scopus 로고    scopus 로고
    • Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes
    • Wang Z, Zang C, Cui K, Schones DE, Barski A, et al. (2009) Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes. Cell 138: 1019-1031.
    • (2009) Cell , vol.138 , pp. 1019-1031
    • Wang, Z.1    Zang, C.2    Cui, K.3    Schones, D.E.4    Barski, A.5
  • 31
    • 68149150830 scopus 로고    scopus 로고
    • H3.3/H2A.Z double variant-containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions
    • Jin C, Zang C, Wei G, Cui K, Peng W, et al. (2009) H3.3/H2A.Z double variant-containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions. Nat Genet 41: 941-945.
    • (2009) Nat Genet , vol.41 , pp. 941-945
    • Jin, C.1    Zang, C.2    Wei, G.3    Cui, K.4    Peng, W.5
  • 33
    • 40449126726 scopus 로고    scopus 로고
    • Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
    • Johnson DS, Li W, Gordon DB, Bhattacharjee A, Curry B, et al. (2008) Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets. Genome Res 18: 393-403.
    • (2008) Genome Res , vol.18 , pp. 393-403
    • Johnson, D.S.1    Li, W.2    Gordon, D.B.3    Bhattacharjee, A.4    Curry, B.5
  • 34
    • 33846689706 scopus 로고    scopus 로고
    • Using GOstats to test gene lists for GO term association
    • Falcon S, Gentleman R (2007) Using GOstats to test gene lists for GO term association. Bioinformatics 23: 257-258.
    • (2007) Bioinformatics , vol.23 , pp. 257-258
    • Falcon, S.1    Gentleman, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.