메뉴 건너뛰기




Volumn 7, Issue 5, 2011, Pages

Structural and functional differences in the long non-coding RNA hotair in mouse and human

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE H3; HISTONE H3 TRIMETHYL LYSINE 27; LONG NONCODING RNA HOTAIR; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR HOXC; TRANSCRIPTION FACTOR HOXD; TRANSCRIPTOME; UNCLASSIFIED DRUG; UNTRANSLATED RNA; HOMEODOMAIN PROTEIN; HOXC11 PROTEIN, HUMAN; HOXC11 PROTEIN, MOUSE; HOXC12 PROTEIN, MOUSE; POLYCOMB GROUP PROTEIN; REPRESSOR PROTEIN;

EID: 79957983437     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1002071     Document Type: Article
Times cited : (213)

References (35)
  • 1
    • 34250305146 scopus 로고    scopus 로고
    • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    • Birney E, Stamatoyannopoulos JA, Dutta A, Guigo R, Gingeras TR, et al. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447: 799-816.
    • (2007) Nature , vol.447 , pp. 799-816
    • Birney, E.1    Stamatoyannopoulos, J.A.2    Dutta, A.3    Guigo, R.4    Gingeras, T.R.5
  • 2
    • 21044431735 scopus 로고    scopus 로고
    • Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution
    • Cheng J, Kapranov P, Drenkow J, Dike S, Brubaker S, et al. (2005) Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science 308: 1149-1154.
    • (2005) Science , vol.308 , pp. 1149-1154
    • Cheng, J.1    Kapranov, P.2    Drenkow, J.3    Dike, S.4    Brubaker, S.5
  • 3
    • 62249133709 scopus 로고    scopus 로고
    • Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
    • Guttman M, Amit I, Garber M, French C, Lin MF, et al. (2009) Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458: 223-227.
    • (2009) Nature , vol.458 , pp. 223-227
    • Guttman, M.1    Amit, I.2    Garber, M.3    French, C.4    Lin, M.F.5
  • 4
    • 65649092633 scopus 로고    scopus 로고
    • The genetic signatures of noncoding RNAs
    • doi:10.1371/journal.pgen.1000459
    • Mattick JS, (2009) The genetic signatures of noncoding RNAs. PLoS Genet 5: e1000459 doi:10.1371/journal.pgen.1000459.
    • (2009) PLoS Genet , vol.5
    • Mattick, J.S.1
  • 5
    • 33846420626 scopus 로고    scopus 로고
    • Noncoding RNA synthesis and loss of Polycomb group repression accompanies the colinear activation of the human HOXA cluster
    • Sessa L, Breiling A, Lavorgna G, Silvestri L, Casari G, et al. (2007) Noncoding RNA synthesis and loss of Polycomb group repression accompanies the colinear activation of the human HOXA cluster. RNA 13: 223-239.
    • (2007) RNA , vol.13 , pp. 223-239
    • Sessa, L.1    Breiling, A.2    Lavorgna, G.3    Silvestri, L.4    Casari, G.5
  • 6
    • 78649807567 scopus 로고    scopus 로고
    • Phosphorylation of the PRC2 component Ezh2 is cell cycle-regulated and up-regulates its binding to ncRNA
    • Kaneko S, Li G, Son J, Xu CF, Margueron R, et al. (2010) Phosphorylation of the PRC2 component Ezh2 is cell cycle-regulated and up-regulates its binding to ncRNA. Genes Dev 24: 2615-2620.
    • (2010) Genes Dev , vol.24 , pp. 2615-2620
    • Kaneko, S.1    Li, G.2    Son, J.3    Xu, C.F.4    Margueron, R.5
  • 7
    • 56549111129 scopus 로고    scopus 로고
    • The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin
    • Nagano T, Mitchell JA, Sanz LA, Pauler FM, Ferguson-Smith AC, et al. (2008) The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin. Science 322: 1717-1720.
    • (2008) Science , vol.322 , pp. 1717-1720
    • Nagano, T.1    Mitchell, J.A.2    Sanz, L.A.3    Pauler, F.M.4    Ferguson-Smith, A.C.5
  • 8
    • 54049138948 scopus 로고    scopus 로고
    • Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin-level regulation
    • Pandey RR, Mondal T, Mohammad F, Enroth S, Redrup L, et al. (2008) Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin-level regulation. Mol Cell 32: 232-246.
    • (2008) Mol Cell , vol.32 , pp. 232-246
    • Pandey, R.R.1    Mondal, T.2    Mohammad, F.3    Enroth, S.4    Redrup, L.5
  • 10
    • 34250729138 scopus 로고    scopus 로고
    • Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
    • Rinn JL, Kertesz M, Wang JK, Squazzo SL, Xu X, et al. (2007) Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129: 1311-1323.
    • (2007) Cell , vol.129 , pp. 1311-1323
    • Rinn, J.L.1    Kertesz, M.2    Wang, J.K.3    Squazzo, S.L.4    Xu, X.5
  • 11
    • 55349109963 scopus 로고    scopus 로고
    • Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome
    • Zhao J, Sun BK, Erwin JA, Song JJ, Lee JT, (2008) Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome. Science 322: 750-756.
    • (2008) Science , vol.322 , pp. 750-756
    • Zhao, J.1    Sun, B.K.2    Erwin, J.A.3    Song, J.J.4    Lee, J.T.5
  • 13
    • 19944376457 scopus 로고    scopus 로고
    • Global identification of human transcribed sequences with genome tiling arrays
    • Bertone P, Stolc V, Royce TE, Rozowsky JS, Urban AE, et al. (2004) Global identification of human transcribed sequences with genome tiling arrays. Science 306: 2242-2246.
    • (2004) Science , vol.306 , pp. 2242-2246
    • Bertone, P.1    Stolc, V.2    Royce, T.E.3    Rozowsky, J.S.4    Urban, A.E.5
  • 14
    • 22244442468 scopus 로고    scopus 로고
    • Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays
    • Kapranov P, Drenkow J, Cheng J, Long J, Helt G, et al. (2005) Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays. Genome Res 15: 987-997.
    • (2005) Genome Res , vol.15 , pp. 987-997
    • Kapranov, P.1    Drenkow, J.2    Cheng, J.3    Long, J.4    Helt, G.5
  • 15
  • 16
    • 23044437498 scopus 로고    scopus 로고
    • RNA meets chromatin
    • Bernstein E, Allis CD, (2005) RNA meets chromatin. Genes Dev 19: 1635-1655.
    • (2005) Genes Dev , vol.19 , pp. 1635-1655
    • Bernstein, E.1    Allis, C.D.2
  • 18
    • 77951118936 scopus 로고    scopus 로고
    • Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis
    • Gupta RA, Shah N, Wang KC, Kim J, Horlings HM, et al. (2010) Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature 464: 1071-1076.
    • (2010) Nature , vol.464 , pp. 1071-1076
    • Gupta, R.A.1    Shah, N.2    Wang, K.C.3    Kim, J.4    Horlings, H.M.5
  • 19
    • 67650921949 scopus 로고    scopus 로고
    • Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
    • Khalil AM, Guttman M, Huarte M, Garber M, Raj A, et al. (2009) Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A 106: 11667-11672.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 11667-11672
    • Khalil, A.M.1    Guttman, M.2    Huarte, M.3    Garber, M.4    Raj, A.5
  • 20
    • 60149099385 scopus 로고    scopus 로고
    • Evolution and functions of long noncoding RNAs
    • Ponting CP, Oliver PL, Reik W, (2009) Evolution and functions of long noncoding RNAs. Cell 136: 629-641.
    • (2009) Cell , vol.136 , pp. 629-641
    • Ponting, C.P.1    Oliver, P.L.2    Reik, W.3
  • 21
    • 77954572735 scopus 로고    scopus 로고
    • Long noncoding RNA as modular scaffold of histone modification complexes
    • Tsai MC, Manor O, Wan Y, Mosammaparast N, Wang JK, et al. (2010) Long noncoding RNA as modular scaffold of histone modification complexes. Science 329: 689-693.
    • (2010) Science , vol.329 , pp. 689-693
    • Tsai, M.C.1    Manor, O.2    Wan, Y.3    Mosammaparast, N.4    Wang, J.K.5
  • 22
    • 74549147547 scopus 로고    scopus 로고
    • Epigenetic regulation of vertebrate Hox genes: a dynamic equilibrium
    • Soshnikova N, Duboule D, (2009) Epigenetic regulation of vertebrate Hox genes: a dynamic equilibrium. Epigenetics 4: 537-540.
    • (2009) Epigenetics , vol.4 , pp. 537-540
    • Soshnikova, N.1    Duboule, D.2
  • 23
    • 3242888285 scopus 로고    scopus 로고
    • RVISTA 2.0: evolutionary analysis of transcription factor binding sites
    • Loots GG, Ovcharenko I, (2004) rVISTA 2.0: evolutionary analysis of transcription factor binding sites. Nucleic Acids Res 32: W217-221.
    • (2004) Nucleic Acids Res , vol.32 , pp. 217-221
    • Loots, G.G.1    Ovcharenko, I.2
  • 24
    • 33646473694 scopus 로고    scopus 로고
    • Complex Loci in human and mouse genomes
    • doi:10.1371/journal.pgen.0020047
    • Engstrom PG, Suzuki H, Ninomiya N, Akalin A, Sessa L, et al. (2006) Complex Loci in human and mouse genomes. PLoS Genet 2: e47 doi:10.1371/journal.pgen.0020047.
    • (2006) PLoS Genet , vol.2
    • Engstrom, P.G.1    Suzuki, H.2    Ninomiya, N.3    Akalin, A.4    Sessa, L.5
  • 25
    • 0038115063 scopus 로고    scopus 로고
    • Organizing axes in time and space; 25 years of colinear tinkering
    • Kmita M, Duboule D, (2003) Organizing axes in time and space; 25 years of colinear tinkering. Science 301: 331-333.
    • (2003) Science , vol.301 , pp. 331-333
    • Kmita, M.1    Duboule, D.2
  • 26
    • 0034656095 scopus 로고    scopus 로고
    • Hox C cluster genes are dispensable for overall body plan of mouse embryonic development
    • Suemori H, Noguchi S, (2000) Hox C cluster genes are dispensable for overall body plan of mouse embryonic development. Dev Biol 220: 333-342.
    • (2000) Dev Biol , vol.220 , pp. 333-342
    • Suemori, H.1    Noguchi, S.2
  • 27
    • 0038613098 scopus 로고    scopus 로고
    • A global control region defines a chromosomal regulatory landscape containing the HoxD cluster
    • Spitz F, Gonzalez F, Duboule D, (2003) A global control region defines a chromosomal regulatory landscape containing the HoxD cluster. Cell 113: 405-417.
    • (2003) Cell , vol.113 , pp. 405-417
    • Spitz, F.1    Gonzalez, F.2    Duboule, D.3
  • 28
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: discovering splice junctions with RNA-Seq
    • Trapnell C, Pachter L, Salzberg SL, (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25: 1105-1111.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 30
    • 21344455343 scopus 로고    scopus 로고
    • Early developmental arrest of mammalian limbs lacking HoxA/HoxD gene function
    • Kmita M, Tarchini B, Zakany J, Logan M, Tabin CJ, et al. (2005) Early developmental arrest of mammalian limbs lacking HoxA/HoxD gene function. Nature 435: 1113-1116.
    • (2005) Nature , vol.435 , pp. 1113-1116
    • Kmita, M.1    Tarchini, B.2    Zakany, J.3    Logan, M.4    Tabin, C.J.5
  • 31
    • 55549148715 scopus 로고    scopus 로고
    • H2AZ is enriched at polycomb complex target genes in ES cells and is necessary for lineage commitment
    • Creyghton MP, Markoulaki S, Levine SS, Hanna J, Lodato MA, et al. (2008) H2AZ is enriched at polycomb complex target genes in ES cells and is necessary for lineage commitment. Cell 135: 649-661.
    • (2008) Cell , vol.135 , pp. 649-661
    • Creyghton, M.P.1    Markoulaki, S.2    Levine, S.S.3    Hanna, J.4    Lodato, M.A.5
  • 32
    • 0033120658 scopus 로고    scopus 로고
    • Hox gene expression in limbs: colinearity by opposite regulatory controls
    • Herault Y, Beckers J, Gerard M, Duboule D, (1999) Hox gene expression in limbs: colinearity by opposite regulatory controls. Dev Biol 208: 157-165.
    • (1999) Dev Biol , vol.208 , pp. 157-165
    • Herault, Y.1    Beckers, J.2    Gerard, M.3    Duboule, D.4
  • 33
    • 23044477774 scopus 로고    scopus 로고
    • Inversion-induced disruption of the Hoxd cluster leads to the partition of regulatory landscapes
    • Spitz F, Herkenne C, Morris MA, Duboule D, (2005) Inversion-induced disruption of the Hoxd cluster leads to the partition of regulatory landscapes. Nat Genet 37: 889-893.
    • (2005) Nat Genet , vol.37 , pp. 889-893
    • Spitz, F.1    Herkenne, C.2    Morris, M.A.3    Duboule, D.4
  • 34
    • 0029748544 scopus 로고    scopus 로고
    • In vivo targeted mutagenesis of a regulatory element required for positioning the Hoxd-11 and Hoxd-10 expression boundaries
    • Gerard M, Chen JY, Gronemeyer H, Chambon P, Duboule D, et al. (1996) In vivo targeted mutagenesis of a regulatory element required for positioning the Hoxd-11 and Hoxd-10 expression boundaries. Genes Dev 10: 2326-2334.
    • (1996) Genes Dev , vol.10 , pp. 2326-2334
    • Gerard, M.1    Chen, J.Y.2    Gronemeyer, H.3    Chambon, P.4    Duboule, D.5
  • 35
    • 33845925394 scopus 로고    scopus 로고
    • Chromatin immunoprecipitation and microarray-based analysis of protein location
    • Lee TI, Johnstone SE, Young RA, (2006) Chromatin immunoprecipitation and microarray-based analysis of protein location. Nat Protoc 1: 729-748.
    • (2006) Nat Protoc , vol.1 , pp. 729-748
    • Lee, T.I.1    Johnstone, S.E.2    Young, R.A.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.