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Volumn 22, Issue 10, 2012, Pages 2079-2087

Gene structure in the sea urchin Strongylocentrotus purpuratus based on transcriptome analysis

Author keywords

[No Author keywords available]

Indexed keywords

RNA; TRANSCRIPTOME;

EID: 84867146009     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.139170.112     Document Type: Article
Times cited : (134)

References (35)
  • 1
    • 67149098194 scopus 로고    scopus 로고
    • Current-generation high-throughputsequencing: Deepening insights intomammalian transcriptomes
    • Blencowe BJ, Ahmad S, Lee LJ. 2009. Current-generation high-throughputsequencing: Deepening insights intomammalian transcriptomes. GenesDev 23: 1379-1386.
    • (2009) GenesDev , vol.23 , pp. 1379-1386
    • Blencowe, B.J.1    Ahmad, S.2    Lee, L.J.3
  • 3
    • 51849126044 scopus 로고    scopus 로고
    • Longer first introns are a general property ofeukaryotic gene structure
    • doi: 10.1371/journal.pone.0003093
    • Bradnam KR, Korf I. 2008. Longer first introns are a general property ofeukaryotic gene structure. PLoS ONE 3: e3093. doi: 10.1371/journal.pone. 0003093.
    • (2008) PLoS ONE , vol.3
    • Bradnam, K.R.1    Korf, I.2
  • 8
    • 15244363004 scopus 로고    scopus 로고
    • SL trans-splicing: Easy come or easy go?
    • DOI 10.1016/j.tig.2005.02.005
    • Hastings KEM. 2005. SL trans-splicing: Easy come or easy go? Trends Genet21: 240-247. (Pubitemid 40387902)
    • (2005) Trends in Genetics , vol.21 , Issue.4 , pp. 240-247
    • Hastings, K.E.M.1
  • 10
    • 34547634659 scopus 로고    scopus 로고
    • High regulatory gene use in sea urchin embryogenesis: Implications for bilaterian development and evolution
    • DOI 10.1016/j.ydbio.2006.10.016, PII S0012160606013091, Sea Urchin Genome: Implications and Insights
    • Howard-Ashby ML, Materna SC, Brown CT, Tu Q, Oliveri P, Cameron RA,Davidson EH. 2006. High regulatory gene use in sea urchinembryogenesis: Implications for bilaterian development and evolution.Dev Biol 300: 27-34. (Pubitemid 44827007)
    • (2006) Developmental Biology , vol.300 , Issue.1 , pp. 27-34
    • Howard-Ashby, M.1    Materna, S.C.2    Brown, C.T.3    Tu, Q.4    Oliveri, P.5    Cameron, R.A.6    Davidson, E.H.7
  • 11
    • 77949601825 scopus 로고    scopus 로고
    • CD-HIT Suite: A web server forclustering and comparing biological sequences
    • Huang Y, Niu B, Gao Y, Fu L, Li W. 2010. CD-HIT Suite: A web server forclustering and comparing biological sequences. Bioinformatics 26: 680-682.
    • (2010) Bioinformatics , vol.26 , pp. 680-682
    • Huang, Y.1    Niu, B.2    Gao, Y.3    Fu, L.4    Li, W.5
  • 12
    • 79953064734 scopus 로고    scopus 로고
    • Evolution of exon-intron structure and alternative splicing
    • doi: 10.1371/journal.pone.0018055
    • Koralewski TE, Krutovsky KV. 2011. Evolution of exon-intron structure and alternative splicing. PLoS ONE 6: e18055. doi: 10.1371/journal.pone.0018055.
    • (2011) PLoS ONE , vol.6
    • Koralewski, T.E.1    Krutovsky, K.V.2
  • 13
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficientalignment of short DNA sequences to the human genome
    • doi: 10.1186/gb-2009-10-3-r25
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficientalignment of short DNA sequences to the human genome.Genome Biol 10: R25. doi: 10.1186/gb-2009-10-3-r25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 14
    • 33745685200 scopus 로고    scopus 로고
    • Expression and function of blimp1/krox, analternatively transcribed regulatory gene of the sea urchinendomesoderm network
    • Livi CB, Davidson EH. 2006. Expression and function of blimp1/krox, analternatively transcribed regulatory gene of the sea urchinendomesoderm network. Dev Biol 293: 513-525.
    • (2006) Dev Biol , vol.293 , pp. 513-525
    • Livi, C.B.1    Davidson, E.H.2
  • 15
    • 0002237356 scopus 로고    scopus 로고
    • The organization of eukaryotic genes
    • Maroni G. 1996. The organization of eukaryotic genes. Evol Biol 29: 1-19.
    • (1996) Evol Biol , vol.29 , pp. 1-19
    • Maroni, G.1
  • 16
    • 77956628617 scopus 로고    scopus 로고
    • High accuracy, high-resolutionprevalence measurement for the majority of locally expressedregulatory genes in early sea urchin development
    • Materna SC, Nam J, Davidson EH. 2010. High accuracy, high- resolutionprevalence measurement for the majority of locally expressedregulatory genes in early sea urchin development. Gene Expr Patterns10: 177-184.
    • (2010) Gene Expr Patterns , vol.10 , pp. 177-184
    • Materna, S.C.1    Nam, J.2    Davidson, E.H.3
  • 17
    • 77949273867 scopus 로고    scopus 로고
    • Highly diversified innatereceptor systems and new forms of animal immunity
    • Messier-Solek C, Buckley KM, Rast JP. 2010. Highly diversified innatereceptor systems and new forms of animal immunity. Semin Immunol22: 39-47.
    • (2010) Semin Immunol , vol.22 , pp. 39-47
    • Messier-Solek, C.1    Buckley, K.M.2    Rast, J.P.3
  • 18
    • 46249106990 scopus 로고    scopus 로고
    • Mapping and quantifying mammalian transcriptomes by RNA-Seq
    • DOI 10.1038/nmeth.1226, PII NMETH.1226
    • Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. 2008. Mappingand quantifying mammalian transcriptomes by RNA-Seq. Nat Methods5: 621-628. (Pubitemid 351911867)
    • (2008) Nature Methods , vol.5 , Issue.7 , pp. 621-628
    • Mortazavi, A.1    Williams, B.A.2    McCue, K.3    Schaeffer, L.4    Wold, B.5
  • 20
    • 4344633763 scopus 로고    scopus 로고
    • SpHnf6, a transcription factor that executes multiple functions in sea urchin embryogenesis
    • DOI 10.1016/j.ydbio.2004.05.033, PII S0012160604004129
    • Otim O, Amore G, Minokawa T, McClay DR, Davidson EH. 2004. SpHnf6,a transcription factor that executes multiple functions in sea urchinembryogenesis. Dev Biol 273: 226-243. (Pubitemid 39140900)
    • (2004) Developmental Biology , vol.273 , Issue.2 , pp. 226-243
    • Otim, O.1    Amore, G.2    Minokawa, T.3    McClay, D.R.4    Davidson, E.H.5
  • 21
    • 71149103484 scopus 로고    scopus 로고
    • Modularity and design principles in the seaurchin embryo gene regulatory network
    • Peter IS, Davidson EH. 2009. Modularity and design principles in the seaurchin embryo gene regulatory network. FEBS Lett 583: 3948-3958.
    • (2009) FEBS Lett , vol.583 , pp. 3948-3958
    • Peter, I.S.1    Davidson, E.H.2
  • 22
    • 79959853681 scopus 로고    scopus 로고
    • A gene regulatory network controlling theembryonic specification of endoderm
    • Peter IS, Davidson EH. 2011. A gene regulatory network controlling theembryonic specification of endoderm. Nature 474: 635-639.
    • (2011) Nature , vol.474 , pp. 635-639
    • Peter, I.S.1    Davidson, E.H.2
  • 24
    • 33750980112 scopus 로고    scopus 로고
    • Genomic insights into the immune system of the sea urchin
    • DOI 10.1126/science.1134301
    • Rast JP, Smith LC, Loza-Coll M, Hibino T, Litman GW. 2006. Genomicinsights into the immune system of the sea urchin. Science 314: 952-956. (Pubitemid 44749931)
    • (2006) Science , vol.314 , Issue.5801 , pp. 952-956
    • Rast, J.P.1    Smith, L.C.2    Loza-Coll, M.3    Hibino, T.4    Litman, G.W.5
  • 26
    • 33750995860 scopus 로고    scopus 로고
    • The genome of the seaurchin Strongylocentrotus purpuratus
    • Sea Urchin Genome Sequencing Consortium
    • Sea Urchin Genome Sequencing Consortium. 2006. The genome of the seaurchin Strongylocentrotus purpuratus. Science 314: 941-952.
    • (2006) Science , vol.314 , pp. 941-952
  • 27
    • 48049106734 scopus 로고    scopus 로고
    • The larval stagesof the sea urchin, Strongylocentrotus purpuratus
    • Smith MM, Cruz Smith L, Cameron RA, Urry LA. 2008. The larval stagesof the sea urchin, Strongylocentrotus purpuratus . J Morphol 269:713-733.
    • (2008) J Morphol , vol.269 , pp. 713-733
    • Smith, M.M.1    Cruz, S.L.2    Cameron, R.A.3    Urry, L.A.4
  • 28
    • 33751538623 scopus 로고    scopus 로고
    • Shedding genomic light on Aristotle's lantern
    • DOI 10.1016/j.ydbio.2006.10.005, PII S0012160606012954, Sea Urchin Genome: Implications and Insights
    • Sodergren E, Shen Y, Song X, Zhang L, Gibbs RA, Weinstock GM. 2006.Shedding genomic light on Aristotle's lantern. Dev Biol 300: 2-8. (Pubitemid 44834391)
    • (2006) Developmental Biology , vol.300 , Issue.1 , pp. 2-8
    • Sodergren, E.1    Shen, Y.2    Song, X.3    Zhang, L.4    Gibbs, R.A.5    Weinstock, G.M.6
  • 31
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splicejunctions with RNA-Seq
    • Trapnell C, Pachter L, Salzberg SL. 2009. TopHat: Discovering splicejunctions with RNA-Seq. Bioinformatics 25: 1105-1111.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 33
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: A revolutionary tool fortranscriptomics
    • Wang Z, Gerstein MB, Snyder M. 2009. RNA-Seq: A revolutionary tool fortranscriptomics. Nat Rev Genet 10: 57-63.
    • (2009) Nat Rev Genet , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.B.2    Snyder, M.3
  • 34
    • 16644384900 scopus 로고    scopus 로고
    • Culture of echinoderm larvae throughmetamorphosis
    • Development of sea urchins, ascidians, and otherinvertebrate deuterostomes: Experimental approaches ed. CA Ettensohnet al., Academic Press, Amsterdam
    • Wray GA, Kitazawa C, Miner B. 2004. Culture of echinoderm larvae throughmetamorphosis. In Development of sea urchins, ascidians, and otherinvertebrate deuterostomes: Experimental approaches (ed. CA Ettensohnet al.), Method in Cell Biology, Vol. 74. Academic Press, Amsterdam.
    • (2004) Method in Cell Biology , vol.74
    • Wray, G.A.1    Kitazawa, C.2    Miner, B.3
  • 35
    • 60549105899 scopus 로고    scopus 로고
    • Patterns of exon-intron architecture variation of genes in eukaryotic genomes
    • doi: 10.1186/1471-2164-10-47
    • Zhu L, Zhang Y, Zhang W, Yang S, Chen J-Q, Tian D. 2009. Patterns of exon-intron architecture variation of genes in eukaryotic genomes. BMCGenomics 10: 47. doi: 10.1186/1471-2164-10-47.
    • (2009) BMCGenomics , vol.10 , pp. 47
    • Zhu, L.1    Zhang, Y.2    Zhang, W.3    Yang, S.4    Chen, J.-Q.5    Tian, D.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.