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Volumn 24, Issue , 2008, Pages 81-103

Systems approaches to identifying gene regulatory networks in plants

Author keywords

Arabidopsis; Emergent properties; Genomics; Modeling; Systems biology; Transcription factors

Indexed keywords

LEUCINE ZIPPER PROTEIN; MICRORNA; PLANT DNA; PLANT RNA; TRANSCRIPTION FACTOR;

EID: 55849151275     PISSN: 10810706     EISSN: None     Source Type: Book Series    
DOI: 10.1146/annurev.cellbio.24.110707.175408     Document Type: Review
Times cited : (90)

References (114)
  • 1
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • The Arabidopsis Initiative
    • The Arabidopsis Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796-815
    • (2000) Nature , vol.408 , pp. 796-815
  • 3
    • 33745352101 scopus 로고    scopus 로고
    • Moving forward in reverse: Genetic technologies to enable genome-wide phenomic screens in Arabidopsis
    • Alonso JM, Ecker JR. 2006. Moving forward in reverse: genetic technologies to enable genome-wide phenomic screens in Arabidopsis. Nat. Rev. Genet. 7:524-36
    • (2006) Nat. Rev. Genet , vol.7 , pp. 524-536
    • Alonso, J.M.1    Ecker, J.R.2
  • 4
  • 5
    • 34548190012 scopus 로고    scopus 로고
    • A central integrator of transcription networks in plant stress and energy signalling
    • Baena-Gonzalez E, Rolland F, Thevelein JM, Sheen J. 2007. A central integrator of transcription networks in plant stress and energy signalling. Nature 448:938-42
    • (2007) Nature , vol.448 , pp. 938-942
    • Baena-Gonzalez, E.1    Rolland, F.2    Thevelein, J.M.3    Sheen, J.4
  • 6
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: Genomics, biogenesis, mechanism, and function
    • Bartel DP. 2004. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116:281-97
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 8
    • 23144461287 scopus 로고    scopus 로고
    • Cell type-specific expression profiling in plants via cell sorting of protoplasts from fluorescent reporter lines
    • Birnbaum K, Jung JW, Wang JY, Lambert GM, Hirst JA, et al. 2005. Cell type-specific expression profiling in plants via cell sorting of protoplasts from fluorescent reporter lines. Nat. Methods 2:615-19
    • (2005) Nat. Methods , vol.2 , pp. 615-619
    • Birnbaum, K.1    Jung, J.W.2    Wang, J.Y.3    Lambert, G.M.4    Hirst, J.A.5
  • 11
    • 33749326628 scopus 로고    scopus 로고
    • A systems approach to understanding root development
    • Brady SM, Benfey PN. 2006. A systems approach to understanding root development. Can. J. Bot. 84:695-701
    • (2006) Can. J. Bot , vol.84 , pp. 695-701
    • Brady, S.M.1    Benfey, P.N.2
  • 12
    • 33749261434 scopus 로고    scopus 로고
    • Unraveling the dynamic transcriptome
    • Brady SM, Long TA, Benfey PN. 2006. Unraveling the dynamic transcriptome. Plant Cell 18:2101-11
    • (2006) Plant Cell , vol.18 , pp. 2101-2111
    • Brady, S.M.1    Long, T.A.2    Benfey, P.N.3
  • 13
    • 38149109010 scopus 로고    scopus 로고
    • A high-resolution root spatiotemporal map reveals dominant expression patterns
    • Brady SM, Orlando DA, Lee J-Y, Wang JY, Koch J, et al. 2007. A high-resolution root spatiotemporal map reveals dominant expression patterns. Science 318:801-6
    • (2007) Science , vol.318 , pp. 801-806
    • Brady, S.M.1    Orlando, D.A.2    Lee, J.-Y.3    Wang, J.Y.4    Koch, J.5
  • 14
    • 33847259713 scopus 로고    scopus 로고
    • Profiling a plant: Expression analysis in Arabidopsis
    • Busch W, Lohmann JU. 2007. Profiling a plant: expression analysis in Arabidopsis. Curr. Opin. Plant Biol. 10:136-41
    • (2007) Curr. Opin. Plant Biol , vol.10 , pp. 136-141
    • Busch, W.1    Lohmann, J.U.2
  • 15
    • 0141907758 scopus 로고    scopus 로고
    • Distribution and characterization of over 1000 T-DNA tags in rice genome
    • Chen S, Jin W, Wang M, Zhang F, Zhou J, et al. 2003. Distribution and characterization of over 1000 T-DNA tags in rice genome. Plant J. 36:105-13
    • (2003) Plant J , vol.36 , pp. 105-113
    • Chen, S.1    Jin, W.2    Wang, M.3    Zhang, F.4    Zhou, J.5
  • 16
    • 34547108086 scopus 로고    scopus 로고
    • Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana
    • Clark RM, Schweikert G, Toomajian C, Ossowski S, Zeller G, et al. 2007. Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana. Science 317:338-42
    • (2007) Science , vol.317 , pp. 338-342
    • Clark, R.M.1    Schweikert, G.2    Toomajian, C.3    Ossowski, S.4    Zeller, G.5
  • 17
    • 0026417225 scopus 로고
    • The war of the whorls: Genetic interactions controlling flower development
    • Coen ES, Meyerowitz EM. 1991. The war of the whorls: genetic interactions controlling flower development. Nature 353:31-37
    • (1991) Nature , vol.353 , pp. 31-37
    • Coen, E.S.1    Meyerowitz, E.M.2
  • 19
    • 34247515226 scopus 로고    scopus 로고
    • An evolutionarily conserved mechanism delimiting SHR movement defines a single layer of endodermis in plants
    • Cui H, Levesque MP, Vernoux T, Jung JW, Paquette AJ, et al. 2007. An evolutionarily conserved mechanism delimiting SHR movement defines a single layer of endodermis in plants. Science 316:421-25
    • (2007) Science , vol.316 , pp. 421-425
    • Cui, H.1    Levesque, M.P.2    Vernoux, T.3    Jung, J.W.4    Paquette, A.J.5
  • 21
    • 23944492980 scopus 로고    scopus 로고
    • Comprehensive interaction map of the Arabidopsis MADS box transcription factors
    • de Folter S, Immink RGH, Kieffer M, Parenicova L, Henz SR, et al. 2005. Comprehensive interaction map of the Arabidopsis MADS box transcription factors. Plant Cell 17:1424-33
    • (2005) Plant Cell , vol.17 , pp. 1424-1433
    • de Folter, S.1    Immink, R.G.H.2    Kieffer, M.3    Parenicova, L.4    Henz, S.R.5
  • 22
    • 31944445648 scopus 로고    scopus 로고
    • Computer simulations reveal properties of the cell-cell signaling network at the shoot apex in Arabidopsis
    • de Reuille PB, Bohn-Courseau I, Ljung K, Morin H, Carraro N, et al. 2005. Computer simulations reveal properties of the cell-cell signaling network at the shoot apex in Arabidopsis. Proc. Natl. Acad. Sci. USA 103:1627-32
    • (2005) Proc. Natl. Acad. Sci. USA , vol.103 , pp. 1627-1632
    • de Reuille, P.B.1    Bohn-Courseau, I.2    Ljung, K.3    Morin, H.4    Carraro, N.5
  • 23
    • 36248951584 scopus 로고    scopus 로고
    • Transcriptomic and proteomic analyses of pericycle cells of the maize primary root
    • Dembinsky D, Woll K, Saleem M, Liu Y, Fu Y, et al. 2007. Transcriptomic and proteomic analyses of pericycle cells of the maize primary root. Plant Physiol. 145:575-88
    • (2007) Plant Physiol , vol.145 , pp. 575-588
    • Dembinsky, D.1    Woll, K.2    Saleem, M.3    Liu, Y.4    Fu, Y.5
  • 25
    • 33845444174 scopus 로고    scopus 로고
    • A complex oscillating network of signaling genes underlies the mouse segmentation clock
    • Dequeant M-L, Glynn E, Gaudenz K, Wahl M, Chen J, et al. 2006. A complex oscillating network of signaling genes underlies the mouse segmentation clock. Science 314:1595-98
    • (2006) Science , vol.314 , pp. 1595-1598
    • Dequeant, M.-L.1    Glynn, E.2    Gaudenz, K.3    Wahl, M.4    Chen, J.5
  • 26
    • 16644389406 scopus 로고    scopus 로고
    • A gene regulatory network model for cell-fate determination during Arabidopsis thaliana flower development that is robust and recovers experimental gene expression profiles
    • Espinosa-Soto C, Padilla-Longoria P, Alvarez-Buylla ER. 2004. A gene regulatory network model for cell-fate determination during Arabidopsis thaliana flower development that is robust and recovers experimental gene expression profiles. Plant Cell 16:2923-39
    • (2004) Plant Cell , vol.16 , pp. 2923-2939
    • Espinosa-Soto, C.1    Padilla-Longoria, P.2    Alvarez-Buylla, E.R.3
  • 28
    • 14744276550 scopus 로고    scopus 로고
    • TILLING without a plough: A new method with applications for reverse genetics
    • Gilchrist EJ, Haughn GW. 2005. TILLING without a plough: a new method with applications for reverse genetics. Curr. Opin. Plant Biol. 8:211-15
    • (2005) Curr. Opin. Plant Biol , vol.8 , pp. 211-215
    • Gilchrist, E.J.1    Haughn, G.W.2
  • 30
    • 35548964342 scopus 로고    scopus 로고
    • Auxin transport is sufficient to generate a maximum and gradient guiding root growth
    • Grieneisen VA, Xu J, Maree AFM, Hogeweg P, Scheres B. 2007. Auxin transport is sufficient to generate a maximum and gradient guiding root growth. Nature 449:1008-13
    • (2007) Nature , vol.449 , pp. 1008-1013
    • Grieneisen, V.A.1    Xu, J.2    Maree, A.F.M.3    Hogeweg, P.4    Scheres, B.5
  • 32
    • 1942501772 scopus 로고    scopus 로고
    • Gene and enhancer trap tagging of vascular-expressed genes in poplar trees
    • Groover A, Fontana JR, Dupper G, Ma C, Martienssen R, et al. 2004. Gene and enhancer trap tagging of vascular-expressed genes in poplar trees. Plant Physiol. 134:1742-51
    • (2004) Plant Physiol , vol.134 , pp. 1742-1751
    • Groover, A.1    Fontana, J.R.2    Dupper, G.3    Ma, C.4    Martienssen, R.5
  • 33
    • 34147133691 scopus 로고    scopus 로고
    • Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis
    • Gutierrez R, Lejay L, Dean A, Chiaromonte F, Shasha D, Coruzzi G. 2007. Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biol. 8:R7
    • (2007) Genome Biol , vol.8
    • Gutierrez, R.1    Lejay, L.2    Dean, A.3    Chiaromonte, F.4    Shasha, D.5    Coruzzi, G.6
  • 36
    • 27644549049 scopus 로고    scopus 로고
    • Patterns of auxin transport and gene expression during primordium development revealed by live imaging of the Arabidopsis inflorescence meristem
    • Heisler MG, Ohno C, Das P, Sieber P, Reddy GV, et al. 2005. Patterns of auxin transport and gene expression during primordium development revealed by live imaging of the Arabidopsis inflorescence meristem. Curr. Biol. 15:1899-911
    • (2005) Curr. Biol , vol.15 , pp. 1899-1911
    • Heisler, M.G.1    Ohno, C.2    Das, P.3    Sieber, P.4    Reddy, G.V.5
  • 37
    • 4043153341 scopus 로고    scopus 로고
    • Versatile gene-specific sequence tags for Arabidopsis functional genomics: Transcript profiling and reverse genetics applications
    • Hilson P, Allemeersch J, Altmann T, Aubourg S, Avon A, et al. 2004. Versatile gene-specific sequence tags for Arabidopsis functional genomics: transcript profiling and reverse genetics applications. Genome Res. 14:2176-89
    • (2004) Genome Res , vol.14 , pp. 2176-2189
    • Hilson, P.1    Allemeersch, J.2    Altmann, T.3    Aubourg, S.4    Avon, A.5
  • 38
    • 34547526914 scopus 로고    scopus 로고
    • Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis
    • Hirai MY, Sugiyama K, Sawada Y, Tohge T, Obayashi T, et al. 2007. Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis. Proc. Natl. Acad. Sci. USA 104:6478-83
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 6478-6483
    • Hirai, M.Y.1    Sugiyama, K.2    Sawada, Y.3    Tohge, T.4    Obayashi, T.5
  • 39
    • 33846846363 scopus 로고    scopus 로고
    • A rice gene activation/knockout mutant resource for high throughput functional genomics
    • Hsing Y-I, Chern C-G, Fan M-J, Lu P-C, Chen K-T, et al. 2007. A rice gene activation/knockout mutant resource for high throughput functional genomics. Plant Mol. Biol. 63:351-64
    • (2007) Plant Mol. Biol , vol.63 , pp. 351-364
    • Hsing, Y.-I.1    Chern, C.-G.2    Fan, M.-J.3    Lu, P.-C.4    Chen, K.-T.5
  • 41
    • 33644868552 scopus 로고    scopus 로고
    • Generation of a flanking sequence-tag database for activation-tagging lines in japonica rice
    • Jeong D-H, An S, Park S, Kang H-G, Park G-G, et al. 2006. Generation of a flanking sequence-tag database for activation-tagging lines in japonica rice. Plant J. 45:123-32
    • (2006) Plant J , vol.45 , pp. 123-132
    • Jeong, D.-H.1    An, S.2    Park, S.3    Kang, H.-G.4    Park, G.-G.5
  • 45
    • 38849171836 scopus 로고    scopus 로고
    • Reliable prediction of regulator targets using 12 Drosophila genomes
    • Kheradpour P, Stark A, Roy S, Kellis M. 2007. Reliable prediction of regulator targets using 12 Drosophila genomes. Genome Res. 17:1919-31
    • (2007) Genome Res , vol.17 , pp. 1919-1931
    • Kheradpour, P.1    Stark, A.2    Roy, S.3    Kellis, M.4
  • 46
    • 34247200577 scopus 로고    scopus 로고
    • The AtGenExpress global stress expression data set: Protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses
    • Kilian J, Whitehead D, Horak J, Wanke D, Weinl S, et al. 2007. The AtGenExpress global stress expression data set: protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses. Plant J. 50:347-63
    • (2007) Plant J , vol.50 , pp. 347-363
    • Kilian, J.1    Whitehead, D.2    Horak, J.3    Wanke, D.4    Weinl, S.5
  • 47
    • 0001084694 scopus 로고    scopus 로고
    • Isolation of a novel class of bZIP transcription factors that interact with ABA-responsive and embryo-specification elements in the Dc3 promoter using a modified yeast one-hybrid system
    • Kim SY, Chung H-J, Thomas TL. 1997. Isolation of a novel class of bZIP transcription factors that interact with ABA-responsive and embryo-specification elements in the Dc3 promoter using a modified yeast one-hybrid system. Plant J. 11:1237-51
    • (1997) Plant J , vol.11 , pp. 1237-1251
    • Kim, S.Y.1    Chung, H.-J.2    Thomas, T.L.3
  • 48
    • 26844496822 scopus 로고    scopus 로고
    • Shining light on signaling and metabolic networks by genetically encoded biosensors
    • Lalonde S, Ehrhardt DW, Frommer WB. 2005. Shining light on signaling and metabolic networks by genetically encoded biosensors. Curr. Opin. Plant Biol. 8:574-81
    • (2005) Curr. Opin. Plant Biol , vol.8 , pp. 574-581
    • Lalonde, S.1    Ehrhardt, D.W.2    Frommer, W.B.3
  • 50
    • 34250780751 scopus 로고    scopus 로고
    • Analysis of transcription factor HY5 genomic binding sites revealed its hierarchical role in light regulation of development
    • Lee J, He K, Stolc V, Lee H, Figueroa P, et al. 2007. Analysis of transcription factor HY5 genomic binding sites revealed its hierarchical role in light regulation of development. Plant Cell 19:731-49
    • (2007) Plant Cell , vol.19 , pp. 731-749
    • Lee, J.1    He, K.2    Stolc, V.3    Lee, H.4    Figueroa, P.5
  • 51
    • 33646723046 scopus 로고    scopus 로고
    • Whole-genome analysis of the SHORT-ROOT developmental pathway in Arabidopsis
    • Levesque MP, Vernoux T, Busch W, Cui H, Wang JY, et al. 2006. Whole-genome analysis of the SHORT-ROOT developmental pathway in Arabidopsis. PLoS Biol. 4:e143
    • (2006) PLoS Biol , vol.4
    • Levesque, M.P.1    Vernoux, T.2    Busch, W.3    Cui, H.4    Wang, J.Y.5
  • 53
    • 0033576611 scopus 로고    scopus 로고
    • Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana
    • Lin X, Kaul S, Rounsley S, Shea TP, Benito M-I, et al. 1999. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Nature 402:761-68
    • (1999) Nature , vol.402 , pp. 761-768
    • Lin, X.1    Kaul, S.2    Rounsley, S.3    Shea, T.P.4    Benito, M.-I.5
  • 54
    • 33846050368 scopus 로고    scopus 로고
    • Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana
    • Locke JCW, Kozma-Bognár L, Gould PD, Fehér B, Kevei E, et al. 2006. Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana. Mol. Syst. Biol. 2:59
    • (2006) Mol. Syst. Biol , vol.2 , pp. 59
    • Locke, J.C.W.1    Kozma-Bognár, L.2    Gould, P.D.3    Fehér, B.4    Kevei, E.5
  • 55
    • 15244359622 scopus 로고    scopus 로고
    • Modelling genetic networks with noisy and varied experimental data: The circadian clock in Arabidopsis thaliana
    • Locke JCW, Millar AJ, Turner MS. 2005a. Modelling genetic networks with noisy and varied experimental data: the circadian clock in Arabidopsis thaliana. J. Theor. Biol. 234:383-93
    • (2005) J. Theor. Biol , vol.234 , pp. 383-393
    • Locke, J.C.W.1    Millar, A.J.2    Turner, M.S.3
  • 56
    • 29544448913 scopus 로고    scopus 로고
    • Locke JCW, Southern MM, Kozma-Bognár L, Hibberd V, Brown PE, et al. 2005b. Extension of a genetic network model by iterative experimentation and mathematical analysis. Mol. Syst. Biol. 1:2005.0013
    • Locke JCW, Southern MM, Kozma-Bognár L, Hibberd V, Brown PE, et al. 2005b. Extension of a genetic network model by iterative experimentation and mathematical analysis. Mol. Syst. Biol. 1:2005.0013
  • 57
    • 35948931439 scopus 로고    scopus 로고
    • An Arabidopsis gene network based on the graphical Gaussian model
    • Ma S, Gong Q, Bohnert HJ. 2007. An Arabidopsis gene network based on the graphical Gaussian model. Genome Res. 17:1614-25
    • (2007) Genome Res , vol.17 , pp. 1614-1625
    • Ma, S.1    Gong, Q.2    Bohnert, H.J.3
  • 58
    • 27744566733 scopus 로고    scopus 로고
    • Circadian clock signaling in Arabidopsis thaliana: From gene expression to physiology and development
    • Más P. 2005. Circadian clock signaling in Arabidopsis thaliana: from gene expression to physiology and development. Int. J. Dev. Biol. 49:491-500
    • (2005) Int. J. Dev. Biol , vol.49 , pp. 491-500
    • Más, P.1
  • 59
    • 0343621499 scopus 로고    scopus 로고
    • Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana
    • Mayer K, Schuller C, Wambutt R, Murphy G, Volckaert G, et al. 1999. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Nature 402:769-77
    • (1999) Nature , vol.402 , pp. 769-777
    • Mayer, K.1    Schuller, C.2    Wambutt, R.3    Murphy, G.4    Volckaert, G.5
  • 60
    • 0032555224 scopus 로고    scopus 로고
    • Dynamics of the genetic regulatory network for Arabidopsis thaliana flower morphogenesis
    • Mendoza L, Alvarez-Buylla ER. 1998. Dynamics of the genetic regulatory network for Arabidopsis thaliana flower morphogenesis. J. Theor. Biol. 193:307-19
    • (1998) J. Theor. Biol , vol.193 , pp. 307-319
    • Mendoza, L.1    Alvarez-Buylla, E.R.2
  • 61
    • 0032879544 scopus 로고    scopus 로고
    • Genetic control of flower morphogenesis in Arabidopsis thaliana: A logical analysis
    • Mendoza L, Thieffry D, Alvarez-Buylla ER. 1999. Genetic control of flower morphogenesis in Arabidopsis thaliana: a logical analysis. Bioinformatics 15:593-606
    • (1999) Bioinformatics , vol.15 , pp. 593-606
    • Mendoza, L.1    Thieffry, D.2    Alvarez-Buylla, E.R.3
  • 62
    • 32044454046 scopus 로고    scopus 로고
    • Metabolomic networks in plants: Transitions from pattern recognition to biological interpretation
    • Morgenthal K, Weckwerth W, Steuer R. 2006. Metabolomic networks in plants: transitions from pattern recognition to biological interpretation. Biosystems 83:108-17
    • (2006) Biosystems , vol.83 , pp. 108-117
    • Morgenthal, K.1    Weckwerth, W.2    Steuer, R.3
  • 64
    • 0037343103 scopus 로고    scopus 로고
    • Laser-capture microdissection, a tool for the global analysis of gene expression in specific plant cell types: Identification of genes expressed differentially in epidermal cells or vascular tissues of maize
    • Nakazono M, Qiu F, Borsuk LA, Schnable PS. 2003. Laser-capture microdissection, a tool for the global analysis of gene expression in specific plant cell types: identification of genes expressed differentially in epidermal cells or vascular tissues of maize. Plant Cell 15:583-96
    • (2003) Plant Cell , vol.15 , pp. 583-596
    • Nakazono, M.1    Qiu, F.2    Borsuk, L.A.3    Schnable, P.S.4
  • 65
    • 29544440189 scopus 로고    scopus 로고
    • Transcriptional profile of the Arabidopsis root quiescent center
    • Nawy T, Lee J-Y, Colinas J, Wang JY, Thongrod SC, et al. 2005. Transcriptional profile of the Arabidopsis root quiescent center. Plant Cell 17:1908-25
    • (2005) Plant Cell , vol.17 , pp. 1908-1925
    • Nawy, T.1    Lee, J.-Y.2    Colinas, J.3    Wang, J.Y.4    Thongrod, S.C.5
  • 66
    • 33745952391 scopus 로고    scopus 로고
    • Laser microdissection of plant tissue: What you see is what you get
    • Nelson T, Tausta SL, Gandotra N, Liu T. 2006. Laser microdissection of plant tissue: What you see is what you get. Annu. Rev. Plant Biol. 57:181-201
    • (2006) Annu. Rev. Plant Biol , vol.57 , pp. 181-201
    • Nelson, T.1    Tausta, S.L.2    Gandotra, N.3    Liu, T.4
  • 67
    • 0034161329 scopus 로고    scopus 로고
    • Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation
    • Orlando V. 2000. Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation. Trends Biochem. Sci. 25:99-104
    • (2000) Trends Biochem. Sci , vol.25 , pp. 99-104
    • Orlando, V.1
  • 68
    • 17644412264 scopus 로고    scopus 로고
    • Bayesian network analysis of signaling networks: A primer
    • Pe'er D. 2005. Bayesian network analysis of signaling networks: a primer. Sci. STKE 281:L4
    • (2005) Sci. STKE , vol.281
    • Pe'er, D.1
  • 69
    • 34547134458 scopus 로고    scopus 로고
    • Genome sequencing: The greening of plant genomics
    • Pennisi E. 2007. Genome sequencing: the greening of plant genomics. Science 317:317
    • (2007) Science , vol.317 , pp. 317
    • Pennisi, E.1
  • 70
    • 34248363651 scopus 로고    scopus 로고
    • Differential binding of calmodulin-related proteins to their targets revealed through high-density Arabidopsis protein microarrays
    • Popescu SC, Popescu GV, Bachan S, Zhang Z, Seay M, et al. 2007. Differential binding of calmodulin-related proteins to their targets revealed through high-density Arabidopsis protein microarrays. Proc. Natl. Acad. Sci. USA 104:4730-35
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 4730-4735
    • Popescu, S.C.1    Popescu, G.V.2    Bachan, S.3    Zhang, Z.4    Seay, M.5
  • 71
    • 34548528157 scopus 로고    scopus 로고
    • Biochemical and statistical network models for systems biology
    • Price ND, Shmulevich I. 2007. Biochemical and statistical network models for systems biology. Curr. Opin. Biotechnol. 18:365-70
    • (2007) Curr. Opin. Biotechnol , vol.18 , pp. 365-370
    • Price, N.D.1    Shmulevich, I.2
  • 72
    • 0347135946 scopus 로고    scopus 로고
    • Whole-genome discovery of transcription factor binding sites by network-level conservation
    • Pritsker M, Liu Y-C, Beer MA, Tavazoie S. 2004. Whole-genome discovery of transcription factor binding sites by network-level conservation. Genome Res. 14:99-108
    • (2004) Genome Res , vol.14 , pp. 99-108
    • Pritsker, M.1    Liu, Y.-C.2    Beer, M.A.3    Tavazoie, S.4
  • 75
    • 33644853940 scopus 로고    scopus 로고
    • Measuring multiple fluxes through plant metabolic networks
    • Ratcliffe RG, Shachar-Hill Y. 2006. Measuring multiple fluxes through plant metabolic networks. Plant J. 45:490-511
    • (2006) Plant J , vol.45 , pp. 490-511
    • Ratcliffe, R.G.1    Shachar-Hill, Y.2
  • 76
    • 4644229971 scopus 로고    scopus 로고
    • Real-time lineage analysis reveals oriented cell divisions associated with morphogenesis at the shoot apex of Arabidopsis thaliana
    • Reddy GV, Heisler MG, Ehrhardt DW, Meyerowitz EM. 2004. Real-time lineage analysis reveals oriented cell divisions associated with morphogenesis at the shoot apex of Arabidopsis thaliana. Development 131:4225-37
    • (2004) Development , vol.131 , pp. 4225-4237
    • Reddy, G.V.1    Heisler, M.G.2    Ehrhardt, D.W.3    Meyerowitz, E.M.4
  • 77
    • 34547683486 scopus 로고    scopus 로고
    • Experimental and mathematical approaches to modeling plant metabolic networks
    • Rios-Estepa R, Lange BM. 2007. Experimental and mathematical approaches to modeling plant metabolic networks. Phytochemistry 68:2351-74
    • (2007) Phytochemistry , vol.68 , pp. 2351-2374
    • Rios-Estepa, R.1    Lange, B.M.2
  • 78
    • 33646831324 scopus 로고    scopus 로고
    • Protein-protein interactions of tandem affinity purification-tagged protein kinases in rice
    • Rohila JS, Chen M, Chen S, Chen J, Cerny R, et al. 2006. Protein-protein interactions of tandem affinity purification-tagged protein kinases in rice. Plant J. 46:1-13
    • (2006) Plant J , vol.46 , pp. 1-13
    • Rohila, J.S.1    Chen, M.2    Chen, S.3    Chen, J.4    Cerny, R.5
  • 79
    • 1642465435 scopus 로고    scopus 로고
    • An Arabidopsis thaliana T-DNA mutagenized population (GABI-Kat) for flanking sequence tag-based reverse genetics
    • Rosso MG, Li Y, Strizhov N, Reiss B, Dekker K, Weisshaar B. 2003. An Arabidopsis thaliana T-DNA mutagenized population (GABI-Kat) for flanking sequence tag-based reverse genetics. Plant Mol. Biol. 53:247-59
    • (2003) Plant Mol. Biol , vol.53 , pp. 247-259
    • Rosso, M.G.1    Li, Y.2    Strizhov, N.3    Reiss, B.4    Dekker, K.5    Weisshaar, B.6
  • 80
    • 3843065475 scopus 로고    scopus 로고
    • High throughput T-DNA insertion mutagenesis in rice: A first step towards in silico reverse genetics
    • Sallaud C, Gay C, Larmande P, Bes M, Piffanelli P, et al. 2004. High throughput T-DNA insertion mutagenesis in rice: a first step towards in silico reverse genetics. Plant J. 39:450-64
    • (2004) Plant J , vol.39 , pp. 450-464
    • Sallaud, C.1    Gay, C.2    Larmande, P.3    Bes, M.4    Piffanelli, P.5
  • 83
    • 84907150192 scopus 로고    scopus 로고
    • Int. Rice Genome Seq. Proj. 2005. The map-based sequence of the rice genome. Nature 436:793-800
    • Int. Rice Genome Seq. Proj. 2005. The map-based sequence of the rice genome. Nature 436:793-800
  • 84
  • 85
    • 31044444975 scopus 로고    scopus 로고
    • TarBase: A comprehensive database of experimentally supported animal microRNA targets
    • Sethupadty P, Corda B, Hatzigeorgiou AG. 2006. TarBase: a comprehensive database of experimentally supported animal microRNA targets. RNA 12:192-97
    • (2006) RNA , vol.12 , pp. 192-197
    • Sethupadty, P.1    Corda, B.2    Hatzigeorgiou, A.G.3
  • 86
    • 34247282083 scopus 로고    scopus 로고
    • Transcriptional profiling of the Arabidopsis embryo
    • Spencer MW, Casson SA, Lindsey K. 2007. Transcriptional profiling of the Arabidopsis embryo. Plant Physiol. 143:924-40
    • (2007) Plant Physiol , vol.143 , pp. 924-940
    • Spencer, M.W.1    Casson, S.A.2    Lindsey, K.3
  • 87
    • 39149096275 scopus 로고    scopus 로고
    • MNU-induced mutant pools and high performance TILLING enable finding of any gene mutation in rice
    • Suzuki T, Eiguchi M, Kumamaru T, Satoh H, Matsusaka H, et al. 2008. MNU-induced mutant pools and high performance TILLING enable finding of any gene mutation in rice. Mol. Genet. Genomics 279:213-23
    • (2008) Mol. Genet. Genomics , vol.279 , pp. 213-223
    • Suzuki, T.1    Eiguchi, M.2    Kumamaru, T.3    Satoh, H.4    Matsusaka, H.5
  • 88
    • 37849025862 scopus 로고    scopus 로고
    • Quantitative proteomics in plants: Choices in abundance
    • Thelen JJ, Peck SC. 2007. Quantitative proteomics in plants: choices in abundance. Plant Cell 19:3339-46
    • (2007) Plant Cell , vol.19 , pp. 3339-3346
    • Thelen, J.J.1    Peck, S.C.2
  • 89
    • 0034649673 scopus 로고    scopus 로고
    • Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana
    • Theologis A, Ecker JR, Palm CJ, Federspiel NA, Kaul S, et al. 2000. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Nature 408:816-20
    • (2000) Nature , vol.408 , pp. 816-820
    • Theologis, A.1    Ecker, J.R.2    Palm, C.J.3    Federspiel, N.A.4    Kaul, S.5
  • 90
    • 33745068992 scopus 로고    scopus 로고
    • Development of Arabidopsis whole-genome microarrays and their application to the discovery of binding sites for the TGA2 transcription factor in salicylic acid-treated plants
    • Thibaud-Nissen F, Wu H, Richmond T, Redman JC, Johnson C, et al. 2006. Development of Arabidopsis whole-genome microarrays and their application to the discovery of binding sites for the TGA2 transcription factor in salicylic acid-treated plants. Plant J. 47:152-62
    • (2006) Plant J , vol.47 , pp. 152-162
    • Thibaud-Nissen, F.1    Wu, H.2    Richmond, T.3    Redman, J.C.4    Johnson, C.5
  • 91
    • 34247572994 scopus 로고    scopus 로고
    • Discovery of chemically induced mutations in rice by TILLING
    • Till B, Cooper J, Tai T, Colowit P, Greene E, et al. 2007. Discovery of chemically induced mutations in rice by TILLING. BMC Plant Biol. 7:19
    • (2007) BMC Plant Biol , vol.7 , pp. 19
    • Till, B.1    Cooper, J.2    Tai, T.3    Colowit, P.4    Greene, E.5
  • 93
    • 33748760611 scopus 로고    scopus 로고
    • The genome of black Cottonwood, Populus trichocarpa (Torr. & Gray)
    • Tuskan GA, DiFazio S, Jansson S, Bohlmann J, Grigoriev I, et al. 2006. The genome of black Cottonwood, Populus trichocarpa (Torr. & Gray). Science 313:1596-604
    • (2006) Science , vol.313 , pp. 1596-1604
    • Tuskan, G.A.1    DiFazio, S.2    Jansson, S.3    Bohlmann, J.4    Grigoriev, I.5
  • 94
    • 0034633775 scopus 로고    scopus 로고
    • Arabidopsis basic leucine zipper transcription factors involved in an abscisic acid-dependent signal transduction pathway under drought and high-salinity conditions
    • Uno Y, Furihata T, Abe H, Yoshida R, Shinozaki K, Yamaguchi-Shinozaki K. 2000. Arabidopsis basic leucine zipper transcription factors involved in an abscisic acid-dependent signal transduction pathway under drought and high-salinity conditions. Proc. Natl. Acad. Sci. USA 97:11632-37
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 11632-11637
    • Uno, Y.1    Furihata, T.2    Abe, H.3    Yoshida, R.4    Shinozaki, K.5    Yamaguchi-Shinozaki, K.6
  • 95
    • 34547137389 scopus 로고    scopus 로고
    • A tandem affinity purification-based technology platform to study the cell cycle interactome in Arabidopsis thaliana
    • Van Leene J, Stals H, Eeckhout D, Persiau G, Van De Slijke E, et al. 2007. A tandem affinity purification-based technology platform to study the cell cycle interactome in Arabidopsis thaliana. Mol. Cell Proteomics 6:1226-38
    • (2007) Mol. Cell Proteomics , vol.6 , pp. 1226-1238
    • Van Leene, J.1    Stals, H.2    Eeckhout, D.3    Persiau, G.4    Van De Slijke, E.5
  • 96
    • 33751415153 scopus 로고    scopus 로고
    • A genomic approach to identify regulatory nodes in the transcriptional network of systemic acquired resistance in plants
    • Wang D, Amornsiripanitch N, Dong X. 2006. A genomic approach to identify regulatory nodes in the transcriptional network of systemic acquired resistance in plants. PLoS Pathog. 2:e123
    • (2006) PLoS Pathog , vol.2
    • Wang, D.1    Amornsiripanitch, N.2    Dong, X.3
  • 97
    • 36549052198 scopus 로고    scopus 로고
    • TRICHOMELESS1 regulates trichome patterning by suppressing GLABRA1 in Arabidopsis
    • Wang S, Kwak S-H, Zeng Q, Ellis BE, Chen X-Y, et al. 2007. TRICHOMELESS1 regulates trichome patterning by suppressing GLABRA1 in Arabidopsis. Development 134:3873-82
    • (2007) Development , vol.134 , pp. 3873-3882
    • Wang, S.1    Kwak, S.-H.2    Zeng, Q.3    Ellis, B.E.4    Chen, X.-Y.5
  • 98
    • 33847006590 scopus 로고    scopus 로고
    • Recent applications of NMR spectroscopy in plant metabolomics
    • Ward JL, Baker JM, Beale MH. 2007. Recent applications of NMR spectroscopy in plant metabolomics. FEBS J. 274:1126-31
    • (2007) FEBS J , vol.274 , pp. 1126-1131
    • Ward, J.L.1    Baker, J.M.2    Beale, M.H.3
  • 100
    • 34848898946 scopus 로고    scopus 로고
    • Conservation and evolution of miRNA regulatory programs in plant development
    • Willmann MR, Poethig RS. 2007. Conservation and evolution of miRNA regulatory programs in plant development. Curr. Opin. Plant Biol. 10:503-11
    • (2007) Curr. Opin. Plant Biol , vol.10 , pp. 503-511
    • Willmann, M.R.1    Poethig, R.S.2
  • 101
    • 33644835675 scopus 로고    scopus 로고
    • Isolation, characterization, and pericycle-specific transcriptome analyses of the novel maize lateral and seminal root initiation mutant rum1
    • Woll K, Borsuk LA, Stransky H, Nettleton D, Schnable PS, Hochholdinger F. 2005. Isolation, characterization, and pericycle-specific transcriptome analyses of the novel maize lateral and seminal root initiation mutant rum1. Plant Physiol. 139:1255-67
    • (2005) Plant Physiol , vol.139 , pp. 1255-1267
    • Woll, K.1    Borsuk, L.A.2    Stransky, H.3    Nettleton, D.4    Schnable, P.S.5    Hochholdinger, F.6
  • 102
    • 34547147089 scopus 로고    scopus 로고
    • Imaging protein interactions with bioluminescence resonance energy transfer (BRET) in plant and mammalian cells and tissues
    • Xu X, Soutto M, Xie Q, Servick S, Subramanian C, et al. 2007. Imaging protein interactions with bioluminescence resonance energy transfer (BRET) in plant and mammalian cells and tissues. Proc. Natl. Acad. Sci. USA 104:10264-69
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 10264-10269
    • Xu, X.1    Soutto, M.2    Xie, Q.3    Servick, S.4    Subramanian, C.5
  • 103
    • 34848925793 scopus 로고    scopus 로고
    • Mapping the genome landscape using tiling array technology
    • Yazaki J, Gregory BD, Ecker JR. 2007. Mapping the genome landscape using tiling array technology. Curr. Opin. Plant Biol. 10:534-42
    • (2007) Curr. Opin. Plant Biol , vol.10 , pp. 534-542
    • Yazaki, J.1    Gregory, B.D.2    Ecker, J.R.3
  • 104
    • 33846085492 scopus 로고    scopus 로고
    • A novel computational model of the circadian clock in Arabidopsis that incorporates PRR7 and PRR9
    • Zeilinger MN, Farré EM, Taylor SR, Kay SA, Doyle FJ. 2006. A novel computational model of the circadian clock in Arabidopsis that incorporates PRR7 and PRR9. Mol. Syst. Biol. 2:58
    • (2006) Mol. Syst. Biol , vol.2 , pp. 58
    • Zeilinger, M.N.1    Farré, E.M.2    Taylor, S.R.3    Kay, S.A.4    Doyle, F.J.5
  • 105
    • 34547625251 scopus 로고    scopus 로고
    • FRET imaging in living maize cells reveals that plasma membrane aquaporins interact to regulate their subcellular localization
    • Zelazny F, Borst JW, Muylaert M, Batoko H, Hemminga MA, Chaumont F. 2007. FRET imaging in living maize cells reveals that plasma membrane aquaporins interact to regulate their subcellular localization. Proc. Natl. Acad. Sci. USA 104:12359-64
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 12359-12364
    • Zelazny, F.1    Borst, J.W.2    Muylaert, M.3    Batoko, H.4    Hemminga, M.A.5    Chaumont, F.6
  • 106
    • 37249000845 scopus 로고    scopus 로고
    • Global analysis of DELLA direct targets in early gibberellin signaling in Arabidopsis
    • Zentella R, Zhang Z-L, Park M, Thomas SG, Endo A, et al. 2007. Global analysis of DELLA direct targets in early gibberellin signaling in Arabidopsis. Plant Cell 19:3037-57
    • (2007) Plant Cell , vol.19 , pp. 3037-3057
    • Zentella, R.1    Zhang, Z.-L.2    Park, M.3    Thomas, S.G.4    Endo, A.5
  • 107
    • 29144527030 scopus 로고    scopus 로고
    • Plant microRNA: A small regulatory molecule with big impact
    • Zhang B, Pan X, Cobb GP, Anderson TA. 2006. Plant microRNA: a small regulatory molecule with big impact. Dev. Biol. 289:3-16
    • (2006) Dev. Biol , vol.289 , pp. 3-16
    • Zhang, B.1    Pan, X.2    Cobb, G.P.3    Anderson, T.A.4
  • 108
    • 28244445008 scopus 로고    scopus 로고
    • RMD: A rice mutant database for functional analysis of the rice genome
    • Zhang J, Li C, Wu C, Xiong L, Chen G, et al. 2006. RMD: a rice mutant database for functional analysis of the rice genome. Nucleic Acids Res. 34:D745-48
    • (2006) Nucleic Acids Res , vol.34
    • Zhang, J.1    Li, C.2    Wu, C.3    Xiong, L.4    Chen, G.5
  • 110
    • 33748629119 scopus 로고    scopus 로고
    • Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis
    • Zhang X, Yazaki J, Sundaresan A, Cokus S, Chan SWL, et al. 2006. Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis. Cell 126:1189-201
    • (2006) Cell , vol.126 , pp. 1189-1201
    • Zhang, X.1    Yazaki, J.2    Sundaresan, A.3    Cokus, S.4    Chan, S.W.L.5
  • 111
    • 34247262061 scopus 로고    scopus 로고
    • UV-B responsive microRNA genes in Arabidopsis thaliana
    • Zhou X, Wang G, Zhang W. 2007. UV-B responsive microRNA genes in Arabidopsis thaliana. Mol. Syst. Biol. 3:103
    • (2007) Mol. Syst. Biol , vol.3 , pp. 103
    • Zhou, X.1    Wang, G.2    Zhang, W.3
  • 112
    • 33845880624 scopus 로고    scopus 로고
    • Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription
    • Zilberman D, Gehring M, Tran RK, Ballinger T, Henikoff S. 2007. Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription. Nat. Genet. 39:61-69
    • (2007) Nat. Genet , vol.39 , pp. 61-69
    • Zilberman, D.1    Gehring, M.2    Tran, R.K.3    Ballinger, T.4    Henikoff, S.5
  • 113
    • 12744261506 scopus 로고    scopus 로고
    • A new dynamic Bayesian network (DBN) approach for identifying gene regulatory networks from time course microarray data
    • Zou M, Conzen SD. 2005. A new dynamic Bayesian network (DBN) approach for identifying gene regulatory networks from time course microarray data. Bioinformatics 21:71-79
    • (2005) Bioinformatics , vol.21 , pp. 71-79
    • Zou, M.1    Conzen, S.D.2
  • 114
    • 0017122064 scopus 로고
    • A clock and wavefront model for control of the number of repeated structures during animal morphogenesis
    • Cooke J, Zeeman EC. 1976. A clock and wavefront model for control of the number of repeated structures during animal morphogenesis. J. Theor. Biol. 58:455-76
    • (1976) J. Theor. Biol , vol.58 , pp. 455-476
    • Cooke, J.1    Zeeman, E.C.2


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