메뉴 건너뛰기




Volumn 11, Issue 1, 2010, Pages

Co-expression of neighbouring genes in Arabidopsis: Separating chromatin effects from direct interactions

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARTICLE; BASE PAIRING; CHROMATIN; CHROMATIN ASSEMBLY AND DISASSEMBLY; CONTROLLED STUDY; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE INTERACTION; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; NONHUMAN; PROMOTER REGION; RNA INTERFERENCE; TRANSCRIPTION REGULATION; TRANSCRIPTION TERMINATION; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENETICS; METABOLISM; PLANT GENE;

EID: 77951888464     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-11-178     Document Type: Article
Times cited : (45)

References (30)
  • 1
    • 1842427830 scopus 로고    scopus 로고
    • The evolutionary dynamics of eukaryotic gene order
    • 10.1038/nrg1319, 15131653
    • Hurst LD, Pal C, Lercher MJ. The evolutionary dynamics of eukaryotic gene order. Nature reviews 2004, 5(4):299-310. 10.1038/nrg1319, 15131653.
    • (2004) Nature reviews , vol.5 , Issue.4 , pp. 299-310
    • Hurst, L.D.1    Pal, C.2    Lercher, M.J.3
  • 2
    • 0036613754 scopus 로고    scopus 로고
    • Clustering of housekeeping genes provides a unified model of gene order in the human genome
    • 10.1038/ng887, 11992122
    • Lercher MJ, Urrutia AO, Hurst LD. Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nature genetics 2002, 31(2):180-183. 10.1038/ng887, 11992122.
    • (2002) Nature genetics , vol.31 , Issue.2 , pp. 180-183
    • Lercher, M.J.1    Urrutia, A.O.2    Hurst, L.D.3
  • 3
    • 0038104857 scopus 로고    scopus 로고
    • Genomic gene clustering analysis of pathways in eukaryotes
    • 10.1101/gr.737703, 430880, 12695325
    • Lee JM, Sonnhammer EL. Genomic gene clustering analysis of pathways in eukaryotes. Genome Res 2003, 13(5):875-882. 10.1101/gr.737703, 430880, 12695325.
    • (2003) Genome Res , vol.13 , Issue.5 , pp. 875-882
    • Lee, J.M.1    Sonnhammer, E.L.2
  • 5
    • 33646779915 scopus 로고    scopus 로고
    • Co-expressed Yeast Genes Cluster Over a Long Range but are not Regularly Spaced
    • 10.1016/j.jmb.2006.03.051, 16631793
    • Lercher MJ, Hurst LD. Co-expressed Yeast Genes Cluster Over a Long Range but are not Regularly Spaced. Journal of Molecular Biology 2006, 359(3):825-831. 10.1016/j.jmb.2006.03.051, 16631793.
    • (2006) Journal of Molecular Biology , vol.359 , Issue.3 , pp. 825-831
    • Lercher, M.J.1    Hurst, L.D.2
  • 6
    • 0037315946 scopus 로고    scopus 로고
    • Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes
    • 10.1101/gr.553803, 420373, 12566401
    • Lercher MJ, Blumenthal T, Hurst LD. Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res 2003, 13(2):238-243. 10.1101/gr.553803, 420373, 12566401.
    • (2003) Genome Res , vol.13 , Issue.2 , pp. 238-243
    • Lercher, M.J.1    Blumenthal, T.2    Hurst, L.D.3
  • 7
    • 34848825637 scopus 로고    scopus 로고
    • Chromatin remodelling is a major source of coexpression of linked genes in yeast
    • 10.1016/j.tig.2007.08.003, 17822800
    • Batada NN, Urrutia AO, Hurst LD. Chromatin remodelling is a major source of coexpression of linked genes in yeast. Trends in Genetics 2007, 23(10):480-484. 10.1016/j.tig.2007.08.003, 17822800.
    • (2007) Trends in Genetics , vol.23 , Issue.10 , pp. 480-484
    • Batada, N.N.1    Urrutia, A.O.2    Hurst, L.D.3
  • 8
    • 17644388085 scopus 로고    scopus 로고
    • Mechanisms for the environmental regulation of gene expression: ecological aspects of animal development
    • 10.1007/BF02705151, 15824442
    • Gilbert SF. Mechanisms for the environmental regulation of gene expression: ecological aspects of animal development. Journal of biosciences 2005, 30(1):65-74. 10.1007/BF02705151, 15824442.
    • (2005) Journal of biosciences , vol.30 , Issue.1 , pp. 65-74
    • Gilbert, S.F.1
  • 9
    • 33846283384 scopus 로고    scopus 로고
    • Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions
    • 10.1038/nrg2041, 17230197
    • Lanctot C, Cheutin T, Cremer M, Cavalli G, Cremer T. Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions. Nature reviews 2007, 8(2):104-115. 10.1038/nrg2041, 17230197.
    • (2007) Nature reviews , vol.8 , Issue.2 , pp. 104-115
    • Lanctot, C.1    Cheutin, T.2    Cremer, M.3    Cavalli, G.4    Cremer, T.5
  • 10
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • 10.1038/35048692, 11130711, The Arabidopsis Genome Initiative
    • The Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000, 408(6814):796-815. 10.1038/35048692, 11130711, The Arabidopsis Genome Initiative.
    • (2000) Nature , vol.408 , Issue.6814 , pp. 796-815
  • 11
    • 3042569650 scopus 로고    scopus 로고
    • Coexpression of neighboring genes in the genome of Arabidopsis thaliana
    • 10.1101/gr.2131104, 419784, 15173112
    • Williams EJ, Bowles DJ. Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res 2004, 14(6):1060-1067. 10.1101/gr.2131104, 419784, 15173112.
    • (2004) Genome Res , vol.14 , Issue.6 , pp. 1060-1067
    • Williams, E.J.1    Bowles, D.J.2
  • 12
    • 26944466421 scopus 로고    scopus 로고
    • Local coexpression domains of two to four genes in the genome of Arabidopsis
    • 10.1104/pp.104.055673, 1150408, 15923337
    • Ren XY, Fiers M, Stiekema WJ, Nap JP. Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiology 2005, 138(2):923-934. 10.1104/pp.104.055673, 1150408, 15923337.
    • (2005) Plant Physiology , vol.138 , Issue.2 , pp. 923-934
    • Ren, X.Y.1    Fiers, M.2    Stiekema, W.J.3    Nap, J.P.4
  • 13
    • 33644871314 scopus 로고    scopus 로고
    • Islands of co-expressed neighbouring genes in Arabidopsis thaliana suggest higher-order chromosome domains
    • 10.1111/j.1365-313X.2005.02619.x, 16412082
    • Zhan S, Horrocks J, Lukens LN. Islands of co-expressed neighbouring genes in Arabidopsis thaliana suggest higher-order chromosome domains. Plant Journal 2006, 45(3):347-357. 10.1111/j.1365-313X.2005.02619.x, 16412082.
    • (2006) Plant Journal , vol.45 , Issue.3 , pp. 347-357
    • Zhan, S.1    Horrocks, J.2    Lukens, L.N.3
  • 14
    • 34848897175 scopus 로고    scopus 로고
    • Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains
    • 10.1007/s11103-007-9209-0, 2039854, 17641976
    • Ren XY, Stiekema WJ, Nap JP. Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. Plant Molecular Biology 2007, 65(1-2):205-217. 10.1007/s11103-007-9209-0, 2039854, 17641976.
    • (2007) Plant Molecular Biology , vol.65 , Issue.1-2 , pp. 205-217
    • Ren, X.Y.1    Stiekema, W.J.2    Nap, J.P.3
  • 15
    • 60849106256 scopus 로고    scopus 로고
    • Searching for bidirectional promoters in Arabidopsis thaliana
    • 10.1186/1471-2105-10-S1-S29, 2648788, 19208129
    • Wang Q, Wan L, Li DY, Zhu LH, Qian MP, Deng MH. Searching for bidirectional promoters in Arabidopsis thaliana. Bmc Bioinformatics 2009, 10(Suppl 1):S29. 10.1186/1471-2105-10-S1-S29, 2648788, 19208129.
    • (2009) Bmc Bioinformatics , vol.10 , Issue.SUPPL. 1
    • Wang, Q.1    Wan, L.2    Li, D.Y.3    Zhu, L.H.4    Qian, M.P.5    Deng, M.H.6
  • 16
    • 53749097001 scopus 로고    scopus 로고
    • Comparative analysis of divergent and convergent gene pairs and their expression patterns in rice, Arabidopsis, and Populus
    • 10.1104/pp.108.122416, 2492640, 18515639
    • Krom N, Ramakrishna W. Comparative analysis of divergent and convergent gene pairs and their expression patterns in rice, Arabidopsis, and Populus. Plant Physiology 2008, 147(4):1763-1773. 10.1104/pp.108.122416, 2492640, 18515639.
    • (2008) Plant Physiology , vol.147 , Issue.4 , pp. 1763-1773
    • Krom, N.1    Ramakrishna, W.2
  • 17
    • 33646859550 scopus 로고    scopus 로고
    • Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana
    • Casneuf T, De Bodt S, Raes J, Maere S, Peer Y. Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana. Genome Biology 2006, 7(2).
    • (2006) Genome Biology , vol.7 , Issue.2
    • Casneuf, T.1    De Bodt, S.2    Raes, J.3    Maere, S.4    Peer, Y.5
  • 18
    • 42149154858 scopus 로고    scopus 로고
    • Budding yeast RNA polymerases I and II employ parallel mechanisms of transcriptional termination
    • Kawauchi J, Mischo H, Braglia P, Rondon A, Proudfoot NJ. Budding yeast RNA polymerases I and II employ parallel mechanisms of transcriptional termination. Genes & Development 2008, 22(8):1082-1092.
    • (2008) Genes & Development , vol.22 , Issue.8 , pp. 1082-1092
    • Kawauchi, J.1    Mischo, H.2    Braglia, P.3    Rondon, A.4    Proudfoot, N.J.5
  • 19
    • 16544386792 scopus 로고    scopus 로고
    • Molecular biology: termination by torpedo
    • 10.1038/432456a, 15565140
    • Tollervey D. Molecular biology: termination by torpedo. Nature 2004, 432(7016):456-457. 10.1038/432456a, 15565140.
    • (2004) Nature , vol.432 , Issue.7016 , pp. 456-457
    • Tollervey, D.1
  • 20
    • 33645844251 scopus 로고    scopus 로고
    • The role of Rat1 in coupling mRNA 3'-end processing to transcription termination: implications for a unified allosteric-torpedo model
    • 10.1101/gad.1409106, 1472303, 16598041
    • Luo W, Johnson AW, Bentley DL. The role of Rat1 in coupling mRNA 3'-end processing to transcription termination: implications for a unified allosteric-torpedo model. Genes Dev 2006, 20(8):954-965. 10.1101/gad.1409106, 1472303, 16598041.
    • (2006) Genes Dev , vol.20 , Issue.8 , pp. 954-965
    • Luo, W.1    Johnson, A.W.2    Bentley, D.L.3
  • 21
    • 40549146278 scopus 로고    scopus 로고
    • The TAIR Database
    • full_text, 18287693
    • Poole RL. The TAIR Database. Methods Mol Biol 2007, 406:179-212. full_text, 18287693.
    • (2007) Methods Mol Biol , vol.406 , pp. 179-212
    • Poole, R.L.1
  • 23
    • 12844264629 scopus 로고    scopus 로고
    • Bicistronic and fused monocistronic transcripts are derived from adjacent loci in the Arabidopsis genome
    • 10.1261/rna.7114505, 1370702, 15659355
    • Thimmapuram J, Duan H, Liu L, Schuler MA. Bicistronic and fused monocistronic transcripts are derived from adjacent loci in the Arabidopsis genome. RNA 2005, 11(2):128-138. 10.1261/rna.7114505, 1370702, 15659355.
    • (2005) RNA , vol.11 , Issue.2 , pp. 128-138
    • Thimmapuram, J.1    Duan, H.2    Liu, L.3    Schuler, M.A.4
  • 24
    • 63649155506 scopus 로고    scopus 로고
    • Evolutionary conservation of neighbouring gene pairs in plants
    • 10.1016/j.gene.2009.02.012, 19264115
    • Liu X, Han B. Evolutionary conservation of neighbouring gene pairs in plants. Gene 2009, 437(1-2):71-79. 10.1016/j.gene.2009.02.012, 19264115.
    • (2009) Gene , vol.437 , Issue.1-2 , pp. 71-79
    • Liu, X.1    Han, B.2
  • 25
    • 60549114880 scopus 로고    scopus 로고
    • Widespread bidirectional promoters are the major source of cryptic transcripts in yeast
    • 10.1038/nature07747, 19169244
    • Neil H, Malabat C, d'Aubenton-Carafa Y, Xu Z, Steinmetz LM, Jacquier A. Widespread bidirectional promoters are the major source of cryptic transcripts in yeast. Nature 2009, 457(7232):1038-1042. 10.1038/nature07747, 19169244.
    • (2009) Nature , vol.457 , Issue.7232 , pp. 1038-1042
    • Neil, H.1    Malabat, C.2    d'Aubenton-Carafa, Y.3    Xu, Z.4    Steinmetz, L.M.5    Jacquier, A.6
  • 27
    • 57849109058 scopus 로고    scopus 로고
    • Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters
    • 10.1126/science.1162228, 2833333, 19056941
    • Core LJ, Waterfall JJ, Lis JT. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 2008, 322(5909):1845-1848. 10.1126/science.1162228, 2833333, 19056941.
    • (2008) Science , vol.322 , Issue.5909 , pp. 1845-1848
    • Core, L.J.1    Waterfall, J.J.2    Lis, J.T.3
  • 30
    • 69249215400 scopus 로고    scopus 로고
    • Divergent transcription: a new feature of active promoters
    • Seila AC, Core LJ, Lis JT, Sharp PA. Divergent transcription: a new feature of active promoters. Cell Cycle 2009, 8(16):2557-2564.
    • (2009) Cell Cycle , vol.8 , Issue.16 , pp. 2557-2564
    • Seila, A.C.1    Core, L.J.2    Lis, J.T.3    Sharp, P.A.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.