메뉴 건너뛰기




Volumn 15, Issue 1, 2015, Pages

Transcriptome analysis of nitrogen-starvation-responsive genes in rice

Author keywords

N starvation; Oryza sativa; Transcription factors; Transcriptome sequencing

Indexed keywords

COMPLEMENTARY DNA; MESSENGER RNA; NITROGEN; TRANSCRIPTOME;

EID: 84924038505     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/s12870-015-0425-5     Document Type: Article
Times cited : (113)

References (53)
  • 1
    • 0032992297 scopus 로고    scopus 로고
    • Nitrogen management and the future of food: lessons from the management of energy and carbon
    • Socolow RH. Nitrogen management and the future of food: lessons from the management of energy and carbon. Proc Natl Acad Sci. 1999;96(11):6001-8.
    • (1999) Proc Natl Acad Sci , vol.96 , Issue.11 , pp. 6001-6008
    • Socolow, R.H.1
  • 2
    • 33644701160 scopus 로고    scopus 로고
    • Genetic analysis of Arabidopsis GATA transcription factor gene family reveals a nitrate-inducible member important for chlorophyll synthesis and glucose sensitivity
    • Bi YM, Zhang Y, Signorelli T, Zhao R, Zhu T, Rothstein S. Genetic analysis of Arabidopsis GATA transcription factor gene family reveals a nitrate-inducible member important for chlorophyll synthesis and glucose sensitivity. Plant J. 2005;44(4):680-92.
    • (2005) Plant J , vol.44 , Issue.4 , pp. 680-692
    • Bi, Y.M.1    Zhang, Y.2    Signorelli, T.3    Zhao, R.4    Zhu, T.5    Rothstein, S.6
  • 3
    • 0032536001 scopus 로고    scopus 로고
    • An Arabidopsis MADS box gene that controls nutrient-induced changes in root architecture
    • Zhang H. An Arabidopsis MADS box gene that controls nutrient-induced changes in root architecture. Science. 1998;279(5349):407-9.
    • (1998) Science , vol.279 , Issue.5349 , pp. 407-409
    • Zhang, H.1
  • 4
    • 68149162662 scopus 로고    scopus 로고
    • R2R3-type MYB transcription factor, CmMYB1, is a central nitrogen assimilation regulator in Cyanidioschyzon merolae
    • Imamura S, Kanesaki Y, Ohnuma M, Inouye T, Sekine Y, Fujiwara T, et al. R2R3-type MYB transcription factor, CmMYB1, is a central nitrogen assimilation regulator in Cyanidioschyzon merolae. Proc Natl Acad Sci. 2009;106(30):12548-53.
    • (2009) Proc Natl Acad Sci , vol.106 , Issue.30 , pp. 12548-12553
    • Imamura, S.1    Kanesaki, Y.2    Ohnuma, M.3    Inouye, T.4    Sekine, Y.5    Fujiwara, T.6
  • 5
    • 49449099340 scopus 로고    scopus 로고
    • Adaptation of Arabidopsis to nitrogen limitation involves induction of anthocyanin synthesis which is controlled by the NLA gene
    • Peng M, Hudson D, Schofield A, Tsao R, Yang R, Gu H, et al. Adaptation of Arabidopsis to nitrogen limitation involves induction of anthocyanin synthesis which is controlled by the NLA gene. J Exp Bot. 2008;59(11):2933-44.
    • (2008) J Exp Bot , vol.59 , Issue.11 , pp. 2933-2944
    • Peng, M.1    Hudson, D.2    Schofield, A.3    Tsao, R.4    Yang, R.5    Gu, H.6
  • 6
    • 77952374633 scopus 로고    scopus 로고
    • Effects of AOX1a deficiency on plant growth, gene expression of respiratory components and metabolic profile under low-nitrogen stress in Arabidopsis thaliana
    • Watanabe CK, Hachiya T, Takahara K, Kawai-Yamada M, Uchimiya H, Uesono Y, et al. Effects of AOX1a deficiency on plant growth, gene expression of respiratory components and metabolic profile under low-nitrogen stress in Arabidopsis thaliana. Plant Cell Physiol. 2010;51(5):810-22.
    • (2010) Plant Cell Physiol , vol.51 , Issue.5 , pp. 810-822
    • Watanabe, C.K.1    Hachiya, T.2    Takahara, K.3    Kawai-Yamada, M.4    Uchimiya, H.5    Uesono, Y.6
  • 7
    • 33646943536 scopus 로고    scopus 로고
    • A central role for the nitrate transporter NRT2.1 in the integrated morphological and physiological responses of the root system to nitrogen limitation in Arabidopsis
    • Remans T, Nacry P, Pervent M, Girin T, Tillard P, Lepetit M, et al. A central role for the nitrate transporter NRT2.1 in the integrated morphological and physiological responses of the root system to nitrogen limitation in Arabidopsis. Plant Physiol. 2006;140(3):909-21.
    • (2006) Plant Physiol , vol.140 , Issue.3 , pp. 909-921
    • Remans, T.1    Nacry, P.2    Pervent, M.3    Girin, T.4    Tillard, P.5    Lepetit, M.6
  • 8
    • 33846378526 scopus 로고    scopus 로고
    • Reciprocal leaf and root expression of AtAmt1.1 and root architectural changes in response to nitrogen starvation
    • Engineer CB, Kranz RG. Reciprocal leaf and root expression of AtAmt1.1 and root architectural changes in response to nitrogen starvation. Plant Physiol. 2007;143(1):236-50.
    • (2007) Plant Physiol , vol.143 , Issue.1 , pp. 236-250
    • Engineer, C.B.1    Kranz, R.G.2
  • 9
    • 2442705377 scopus 로고    scopus 로고
    • Metabolic engineering with Dof1 transcription factor in plants: improved nitrogen assimilation and growth under low-nitrogen conditions
    • Yanagisawa S, Akiyama A, Kisaka H, Uchimiya H, Miwa T. Metabolic engineering with Dof1 transcription factor in plants: improved nitrogen assimilation and growth under low-nitrogen conditions. Proc Natl Acad Sci. 2004;101(20):7833-8.
    • (2004) Proc Natl Acad Sci , vol.101 , Issue.20 , pp. 7833-7838
    • Yanagisawa, S.1    Akiyama, A.2    Kisaka, H.3    Uchimiya, H.4    Miwa, T.5
  • 10
    • 0034943198 scopus 로고    scopus 로고
    • Over-expression of cytosolic glutamine synthetase increases photosynthesis and growth at low nitrogen concentrations
    • Fuentes SI, Allen DJ, Ortiz-Lopez A, Hernandez G. Over-expression of cytosolic glutamine synthetase increases photosynthesis and growth at low nitrogen concentrations. J Exp Bot. 2001;52(358):1071-81.
    • (2001) J Exp Bot , vol.52 , Issue.358 , pp. 1071-1081
    • Fuentes, S.I.1    Allen, D.J.2    Ortiz-Lopez, A.3    Hernandez, G.4
  • 11
    • 33845801278 scopus 로고    scopus 로고
    • Two cytosolic glutamine synthetase isoforms of maize are specifically involved in the control of grain production
    • Martin A, Lee J, Kichey T, Gerentes D, Zivy M, Tatout C, et al. Two cytosolic glutamine synthetase isoforms of maize are specifically involved in the control of grain production. Plant Cell. 2006;18(11):3252-74.
    • (2006) Plant Cell , vol.18 , Issue.11 , pp. 3252-3274
    • Martin, A.1    Lee, J.2    Kichey, T.3    Gerentes, D.4    Zivy, M.5    Tatout, C.6
  • 12
    • 0036010138 scopus 로고    scopus 로고
    • Genetic manipulation and quantitative-trait loci mapping for nitrogen recycling in rice
    • Yamaya T, Obara M, Nakajima H, Sasaki S, Hayakawa T, Sato T. Genetic manipulation and quantitative-trait loci mapping for nitrogen recycling in rice. J Exp Bot. 2002;53(370):917-25.
    • (2002) J Exp Bot , vol.53 , Issue.370 , pp. 917-925
    • Yamaya, T.1    Obara, M.2    Nakajima, H.3    Sasaki, S.4    Hayakawa, T.5    Sato, T.6
  • 14
    • 49349091276 scopus 로고    scopus 로고
    • Genetic engineering of improved nitrogen use efficiency in rice by the tissue-specific expression of alanine aminotransferase
    • Shrawat AK, Carroll RT, DePauw M, Taylor GJ, Good AG. Genetic engineering of improved nitrogen use efficiency in rice by the tissue-specific expression of alanine aminotransferase. Plant Biotechnol J. 2008;6(7):722-32.
    • (2008) Plant Biotechnol J , vol.6 , Issue.7 , pp. 722-732
    • Shrawat, A.K.1    Carroll, R.T.2    DePauw, M.3    Taylor, G.J.4    Good, A.G.5
  • 15
    • 70449105246 scopus 로고    scopus 로고
    • Increased nitrogen-use efficiency in transgenic rice plants over-expressing a nitrogen-responsive early nodulin gene identified from rice expression profiling
    • Bi YM, Kant S, Clarke J, Gidda S, Ming F, Xu J, et al. Increased nitrogen-use efficiency in transgenic rice plants over-expressing a nitrogen-responsive early nodulin gene identified from rice expression profiling. Plant Cell Environ. 2009;32(12):1749-60.
    • (2009) Plant Cell Environ , vol.32 , Issue.12 , pp. 1749-1760
    • Bi, Y.M.1    Kant, S.2    Clarke, J.3    Gidda, S.4    Ming, F.5    Xu, J.6
  • 16
    • 0037783247 scopus 로고    scopus 로고
    • Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6-phosphate, iron, and sulfate metabolism
    • Wang R, Okamoto M, Xing X, Crawford NM. Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6-phosphate, iron, and sulfate metabolism. Plant Physiol. 2003;132(2):556-67.
    • (2003) Plant Physiol , vol.132 , Issue.2 , pp. 556-567
    • Wang, R.1    Okamoto, M.2    Xing, X.3    Crawford, N.M.4
  • 17
    • 36348952053 scopus 로고    scopus 로고
    • Genome-wide analysis of Arabidopsis responsive transcriptome to nitrogen limitation and its regulation by the ubiquitin ligase gene NLA
    • Peng M, Bi YM, Zhu T, Rothstein SJ. Genome-wide analysis of Arabidopsis responsive transcriptome to nitrogen limitation and its regulation by the ubiquitin ligase gene NLA. Plant Mol Biol. 2007;65(6):775-97.
    • (2007) Plant Mol Biol , vol.65 , Issue.6 , pp. 775-797
    • Peng, M.1    Bi, Y.M.2    Zhu, T.3    Rothstein, S.J.4
  • 18
    • 20044381102 scopus 로고    scopus 로고
    • Genome-wide patterns of carbon and nitrogen regulation of gene expression validate the combined carbon and nitrogen (CN)-signaling hypothesis in plants
    • Palenchar PM, Kouranov A, Lejay LV, Coruzzi GM. Genome-wide patterns of carbon and nitrogen regulation of gene expression validate the combined carbon and nitrogen (CN)-signaling hypothesis in plants. Genome Biol. 2004;5(11):R91.
    • (2004) Genome Biol , vol.5 , Issue.11 , pp. R91
    • Palenchar, P.M.1    Kouranov, A.2    Lejay, L.V.3    Coruzzi, G.M.4
  • 19
    • 34848890339 scopus 로고    scopus 로고
    • Global transcription profiling reveals differential responses to chronic nitrogen stress and putative nitrogen regulatory components in Arabidopsis
    • Bi Y-M, Wang R-L, Zhu T, Rothstein SJ. Global transcription profiling reveals differential responses to chronic nitrogen stress and putative nitrogen regulatory components in Arabidopsis. BMC Genom. 2007;8(1):281.
    • (2007) BMC Genom , vol.8 , Issue.1 , pp. 281
    • Bi, Y.-M.1    Wang, R.-L.2    Zhu, T.3    Rothstein, S.J.4
  • 20
    • 33646344515 scopus 로고    scopus 로고
    • Expression profiles of 10,422 genes at early stage of low nitrogen stress in rice assayed using a cDNA microarray
    • Lian X, Wang S, Zhang J, Feng Q, Zhang L, Fan D, et al. Expression profiles of 10,422 genes at early stage of low nitrogen stress in rice assayed using a cDNA microarray. Plant Mol Biol. 2006;60(5):617-31.
    • (2006) Plant Mol Biol , vol.60 , Issue.5 , pp. 617-631
    • Lian, X.1    Wang, S.2    Zhang, J.3    Feng, Q.4    Zhang, L.5    Fan, D.6
  • 21
    • 67650287043 scopus 로고    scopus 로고
    • Transcriptome analysis of nitrogen-efficient rice over-expressing alanine aminotransferase
    • Beatty PH, Shrawat AK, Carroll RT, Zhu T, Good AG. Transcriptome analysis of nitrogen-efficient rice over-expressing alanine aminotransferase. Plant Biotechnol J. 2009;7(6):562-76.
    • (2009) Plant Biotechnol J , vol.7 , Issue.6 , pp. 562-576
    • Beatty, P.H.1    Shrawat, A.K.2    Carroll, R.T.3    Zhu, T.4    Good, A.G.5
  • 22
    • 84866731676 scopus 로고    scopus 로고
    • Transcriptome response to nitrogen starvation in rice
    • Cai H, Lu Y, Xie W, Zhu T, Lian X. Transcriptome response to nitrogen starvation in rice. J Biosci. 2012;37(4):731-47.
    • (2012) J Biosci , vol.37 , Issue.4 , pp. 731-747
    • Cai, H.1    Lu, Y.2    Xie, W.3    Zhu, T.4    Lian, X.5
  • 23
    • 81755176108 scopus 로고    scopus 로고
    • Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots
    • Xu Z, Zhong S, Li X, Li W, Rothstein SJ, Zhang S, et al. Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots. PLoS One. 2011;6(11):e28009.
    • (2011) PLoS One , vol.6 , Issue.11 , pp. e28009
    • Xu, Z.1    Zhong, S.2    Li, X.3    Li, W.4    Rothstein, S.J.5    Zhang, S.6
  • 24
    • 84872193386 scopus 로고    scopus 로고
    • Genome-wide expression profiling of maize in response to individual and combined water and nitrogen stresses
    • Humbert S, Subedi S, Cohn J, Zeng B, Bi YM, Chen X, et al. Genome-wide expression profiling of maize in response to individual and combined water and nitrogen stresses. BMC Genom. 2013;14:3.
    • (2013) BMC Genom , vol.14 , pp. 3
    • Humbert, S.1    Subedi, S.2    Cohn, J.3    Zeng, B.4    Bi, Y.M.5    Chen, X.6
  • 25
    • 78650608472 scopus 로고    scopus 로고
    • Nitrogen stress response of a hybrid species: a gene expression study
    • Brouillette LC, Donovan LA. Nitrogen stress response of a hybrid species: a gene expression study. Ann Bot. 2011;107(1):101-8.
    • (2011) Ann Bot , vol.107 , Issue.1 , pp. 101-108
    • Brouillette, L.C.1    Donovan, L.A.2
  • 26
    • 0037291268 scopus 로고    scopus 로고
    • Constitutive expression of a novel-type ammonium transporter OsAMT2 in rice plants
    • Suenaga A, Moriya K, Sonoda Y, Ikeda A, von Wirén N, Hayakawa T, et al. Constitutive expression of a novel-type ammonium transporter OsAMT2 in rice plants. Plant Cell Physiol. 2003;44(2):206-11.
    • (2003) Plant Cell Physiol , vol.44 , Issue.2 , pp. 206-211
    • Suenaga, A.1    Moriya, K.2    Sonoda, Y.3    Ikeda, A.4    Wirén, N.5    Hayakawa, T.6
  • 27
    • 84874236029 scopus 로고    scopus 로고
    • Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics
    • Sakai H, Lee SS, Tanaka T, Numa H, Kim J, Kawahara Y, et al. Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics. Plant Cell Physiol. 2013;54(2):e6.
    • (2013) Plant Cell Physiol , vol.54 , Issue.2 , pp. e6
    • Sakai, H.1    Lee, S.S.2    Tanaka, T.3    Numa, H.4    Kim, J.5    Kawahara, Y.6
  • 28
    • 84875134412 scopus 로고    scopus 로고
    • Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data
    • Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, et al. Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice. 2013;6(1):4.
    • (2013) Rice , vol.6 , Issue.1 , pp. 4
    • Kawahara, Y.1    Bastide, M.2    Hamilton, J.P.3    Kanamori, H.4    McCombie, W.R.5    Ouyang, S.6
  • 29
    • 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. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009;10(3):R25.
    • (2009) Genome Biol , vol.10 , Issue.3 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 30
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol. 2013;14(4):R36.
    • (2013) Genome Biol , vol.14 , Issue.4 , pp. R36
    • Kim, D.1    Pertea, G.2    Trapnell, C.3    Pimentel, H.4    Kelley, R.5    Salzberg, S.L.6
  • 31
    • 0036910174 scopus 로고    scopus 로고
    • T-DNA insertional mutagenesis for activation tagging in rice
    • Jeong DH, An S, Kang HG, Moon S, Han JJ, Park S, et al. T-DNA insertional mutagenesis for activation tagging in rice. Plant Physiol. 2002;130(4):1636-44.
    • (2002) Plant Physiol , vol.130 , Issue.4 , pp. 1636-1644
    • Jeong, D.H.1    An, S.2    Kang, H.G.3    Moon, S.4    Han, J.J.5    Park, S.6
  • 32
    • 84887965203 scopus 로고    scopus 로고
    • Analysis of the early-flowering mechanisms and generation of T-DNA tagging lines in Kitaake, a model rice cultivar
    • Kim SL, Choi M, Jung KH, An G. Analysis of the early-flowering mechanisms and generation of T-DNA tagging lines in Kitaake, a model rice cultivar. J Exp Bot. 2013;64(14):4169-82.
    • (2013) J Exp Bot , vol.64 , Issue.14 , pp. 4169-4182
    • Kim, S.L.1    Choi, M.2    Jung, K.H.3    An, G.4
  • 33
    • 0013394889 scopus 로고    scopus 로고
    • Mechanisms of alternative pre-messenger RNA splicing
    • Black DL. Mechanisms of alternative pre-messenger RNA splicing. Annu Rev Biochem. 2003;72:291-336.
    • (2003) Annu Rev Biochem , vol.72 , pp. 291-336
    • Black, D.L.1
  • 34
    • 38949133822 scopus 로고    scopus 로고
    • The search for alternative splicing regulators: new approaches offer a path to a splicing code
    • David CJ, Manley JL. The search for alternative splicing regulators: new approaches offer a path to a splicing code. Genes Dev. 2008;22(3):279-85.
    • (2008) Genes Dev , vol.22 , Issue.3 , pp. 279-285
    • David, C.J.1    Manley, J.L.2
  • 35
    • 18344364099 scopus 로고    scopus 로고
    • Understanding alternative sp licing: towards a cellular code
    • Matlin AJ, Clark F, Smith CW. Understanding alternative sp licing: towards a cellular code. Nat Rev Mol Cell Biol. 2005;6(5):386-98.
    • (2005) Nat Rev Mol Cell Biol , vol.6 , Issue.5 , pp. 386-398
    • Matlin, A.J.1    Clark, F.2    Smith, C.W.3
  • 36
  • 37
    • 33646484347 scopus 로고    scopus 로고
    • Genomewide comparative analysis of alternative splicing in plants
    • Wang BB, Brendel V. Genomewide comparative analysis of alternative splicing in plants. Proc Natl Acad Sci. 2006;103(18):7175-80.
    • (2006) Proc Natl Acad Sci , vol.103 , Issue.18 , pp. 7175-7180
    • Wang, B.B.1    Brendel, V.2
  • 38
    • 47649124124 scopus 로고    scopus 로고
    • A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome
    • Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, et al. A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science. 2008;321(5891):956-60.
    • (2008) Science , vol.321 , Issue.5891 , pp. 956-960
    • Sultan, M.1    Schulz, M.H.2    Richard, H.3    Magen, A.4    Klingenhoff, A.5    Scherf, M.6
  • 39
    • 56549101959 scopus 로고    scopus 로고
    • Alternative isoform regulation in human tissue transcriptomes
    • Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, et al. Alternative isoform regulation in human tissue transcriptomes. Nature. 2008;456(7221):470-6.
    • (2008) Nature , vol.456 , Issue.7221 , pp. 470-476
    • Wang, E.T.1    Sandberg, R.2    Luo, S.3    Khrebtukova, I.4    Zhang, L.5    Mayr, C.6
  • 40
    • 84861890038 scopus 로고    scopus 로고
    • Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis
    • Marquez Y, Brown JW, Simpson C, Barta A, Kalyna M. Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis. Genome Res. 2012;22(6):1184-95.
    • (2012) Genome Res , vol.22 , Issue.6 , pp. 1184-1195
    • Marquez, Y.1    Brown, J.W.2    Simpson, C.3    Barta, A.4    Kalyna, M.5
  • 41
    • 77951871117 scopus 로고    scopus 로고
    • Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome
    • Zhang G, Guo G, Hu X, Zhang Y, Li Q, Li R, et al. Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome. Genome Res. 2010;20(5):646-54.
    • (2010) Genome Res , vol.20 , Issue.5 , pp. 646-654
    • Zhang, G.1    Guo, G.2    Hu, X.3    Zhang, Y.4    Li, Q.5    Li, R.6
  • 42
    • 33744951518 scopus 로고    scopus 로고
    • Differential regulation of transcript accumulation and alternative splicing of a DREB2 homolog under abiotic stress conditions in common wheat
    • Egawa C, Kobayashi F, Ishibashi M, Nakamura T, Nakamura C, Takumi S. Differential regulation of transcript accumulation and alternative splicing of a DREB2 homolog under abiotic stress conditions in common wheat. Genes Genet Syst. 2006;81(2):77-91.
    • (2006) Genes Genet Syst , vol.81 , Issue.2 , pp. 77-91
    • Egawa, C.1    Kobayashi, F.2    Ishibashi, M.3    Nakamura, T.4    Nakamura, C.5    Takumi, S.6
  • 43
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet. 2009;10(1):57-63.
    • (2009) Nat Rev Genet , vol.10 , Issue.1 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 45
    • 77952123055 scopus 로고    scopus 로고
    • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
    • Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010;28(5):511-5.
    • (2010) Nat Biotechnol , vol.28 , Issue.5 , pp. 511-515
    • Trapnell, C.1    Williams, B.A.2    Pertea, G.3    Mortazavi, A.4    Kwan, G.5    Baren, M.J.6
  • 46
    • 84859885816 scopus 로고    scopus 로고
    • Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
    • Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Protoc. 2012;7(3):562-78.
    • (2012) Nat Protoc , vol.7 , Issue.3 , pp. 562-578
    • Trapnell, C.1    Roberts, A.2    Goff, L.3    Pertea, G.4    Kim, D.5    Kelley, D.R.6
  • 47
  • 48
    • 85013782742 scopus 로고    scopus 로고
    • Differential expression of RNA-Seq data at the gene level-the DESeq package
    • Anders S, Huber W. Differential expression of RNA-Seq data at the gene level-the DESeq package. Eur Mol Biol Lab. 2013.
    • Eur Mol Biol Lab
    • Anders, S.1    Huber, W.2
  • 51
    • 43949138227 scopus 로고    scopus 로고
    • Blast2GO: a comprehensive suite for functional analysis in plant genomics
    • Conesa A, Gotz S. Blast2GO: a comprehensive suite for functional analysis in plant genomics. Intl J Plant Genom. 2008;2008:619832.
    • (2008) Intl J Plant Genom , vol.2008 , pp. 619832
    • Conesa, A.1    Gotz, S.2
  • 52
    • 80051941094 scopus 로고    scopus 로고
    • Identification of novel transcripts in annotated genomes using RNA-Seq
    • Roberts A, Pimentel H, Trapnell C, Pachter L. Identification of novel transcripts in annotated genomes using RNA-Seq. Bioinformatics. 2011;27(17):2325-9.
    • (2011) Bioinformatics , vol.27 , Issue.17 , pp. 2325-2329
    • Roberts, A.1    Pimentel, H.2    Trapnell, C.3    Pachter, L.4
  • 53
    • 0033918191 scopus 로고    scopus 로고
    • T-DNA insertional mutagenesis for functional genomics in rice
    • Jeon JS, Lee S, Jung KH, Jun SH, Jeong DH, Lee J, et al. T-DNA insertional mutagenesis for functional genomics in rice. Plant J. 2000;22(6):561-70.
    • (2000) Plant J , vol.22 , Issue.6 , pp. 561-570
    • Jeon, J.S.1    Lee, S.2    Jung, K.H.3    Jun, S.H.4    Jeong, D.H.5    Lee, J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.