Plant systems biology / edited by Dmitry A. Belostotsky.

Contributor(s): Belostotsky, Dmitry A
Material type: TextTextSeries: Springer protocols (Series): ; Methods in molecular biology (Clifton, N.J.): v. 553.Publisher: New York, NY : Humana Press, 2009Description: 1 online resource (xv, 408 pages) : illustrations (some color)Content type: text Media type: computer Carrier type: online resourceISBN: 9781603275637; 1603275630Subject(s): Plant molecular biology | Systems biology | Methods | Laboratory Manuals | Systems Biology | Plant Physiological Phenomena | Computational Biology | Publication Formats | Phenomena and Processes | Investigative Techniques | Biology | Analytical, Diagnostic and Therapeutic Techniques and Equipment | Publication Characteristics | Biological Science Disciplines | Natural Science Disciplines | Disciplines and Occupations | Plant molecular biology | Systems biology | Biologie des systèmes | Bildverarbeitung | Genomik | Metabolit | Pflanzen | Systembiologie | Genexpression | Computerunterstütztes Verfahren | Biologie moléculaire végétale | Biologie systémique | bioinformatics | planten | plants | moleculaire biologie | molecular biology | biologische technieken | biological techniques | systeembiologie | systems biology | genregulatie | gene regulation | genexpressieanalyse | genomics | protocollen | protocols | Plant Molecular Biology | Moleculaire plantenbiologieGenre/Form: Electronic books. Additional physical formats: Print version:: Plant systems biology.DDC classification: 580 LOC classification: QK728Online resources: Click here to access online
Contents:
Gene-specific and genome-wide ChIP approaches to study plant transcriptional networks / K. Morohashi, Z. Xie and E. Grotewold -- Genome-wide analysis of RNA-protein interactions in plants / A. Barkan -- Whole-genome microarrays: applications and technical issues / B.D. Gregory and D.A. Belostotsky -- Manipulating large-scale Arabidopsis microarray expression data: identifying dominant expression patterns and biological process enrichment / D.A. Orlando [and others] -- Applications of ultra-high-throughput sequencing / S. Fox, S. Filichkin and T.C. Mockler -- Isolation of plant polysomal mRNA by differential centrifugation and ribosome immunopurification methods / A. Mustroph, P. Juntawong and J. Bailey-Serres -- Chromatin charting: global mapping of epigenetic effects / C. Luo and E. Lam -- Clone-based functional genomics / A. Bleys, M. Karimi and P. Hilson -- Challenges and approaches to statistical design and inference in high-dimensional investigations / G.L. Gadbury, K.A. Garrett and D.B. Allison -- Discrete dynamic modeling with asynchronous update, or how to model complex systems in the absence of quantitative information / S.M. Assmann and R. Albert -- Quantification of variation in expression networks / D.J. Kliebenstein -- Co-expression analysis of metabolic pathways in plants / A. Loraine -- Integration of metabolic reactions and gene regulation / C.H. Yeang -- Applying word-based algorithms: the IMEter / I.F. Korf and A.B. Rose -- Live-imaging and image processing of shoot apical meristems of Arabidopsis thaliana / G.V. Reddy and A. Roy-Chowdhury -- Computer vision as a tool to study plant development / E.P. Spalding -- Metabolomics of plant volatiles / A.V. Qualley and N. Dudareva -- Chemical genomics approaches in plant biology / L. Norambuena, N.V. Raikhel and G.R. Hicks -- Comparison of quantitative metabolite imaging tools and carbon-13 techniques for fluxomics / T. Niittylae [and others] -- Democratization and integration of genomic profiling tools / M.R. Sussman, E.L. Huttlin and D.J. Wohlbach.
Action note: digitized 2010 committed to preserveSummary: As a fairly new and expansive area of study, plant systems biology has been approached by scientists from fields as varied as plant physiology and astrophysics, creating a wide variety of techniques and methods to further this vital research. In Plant Systems Biology, expert investigators provide cutting-edge chapters dealing with diverse subjects such as systems biology of plant gene expression to analysis of networks, pathways, specific statistical issues and novel computational tools, imaging-based tools as well as chemical genetic, metabolomic and integrative methods that cannot be easily pigeonholed. As a volume in the highly successful Methods in Molecular Biology series, this work provides the kind of detailed description and implementation advice that is crucial for getting optimal results. Authoritative and comprehensive, Plant Systems Biology is an ideal guide for all researchers who wish to contribute to the evolution of the vibrant field of plant biology.
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Includes bibliographical references and index.

Gene-specific and genome-wide ChIP approaches to study plant transcriptional networks / K. Morohashi, Z. Xie and E. Grotewold -- Genome-wide analysis of RNA-protein interactions in plants / A. Barkan -- Whole-genome microarrays: applications and technical issues / B.D. Gregory and D.A. Belostotsky -- Manipulating large-scale Arabidopsis microarray expression data: identifying dominant expression patterns and biological process enrichment / D.A. Orlando [and others] -- Applications of ultra-high-throughput sequencing / S. Fox, S. Filichkin and T.C. Mockler -- Isolation of plant polysomal mRNA by differential centrifugation and ribosome immunopurification methods / A. Mustroph, P. Juntawong and J. Bailey-Serres -- Chromatin charting: global mapping of epigenetic effects / C. Luo and E. Lam -- Clone-based functional genomics / A. Bleys, M. Karimi and P. Hilson -- Challenges and approaches to statistical design and inference in high-dimensional investigations / G.L. Gadbury, K.A. Garrett and D.B. Allison -- Discrete dynamic modeling with asynchronous update, or how to model complex systems in the absence of quantitative information / S.M. Assmann and R. Albert -- Quantification of variation in expression networks / D.J. Kliebenstein -- Co-expression analysis of metabolic pathways in plants / A. Loraine -- Integration of metabolic reactions and gene regulation / C.H. Yeang -- Applying word-based algorithms: the IMEter / I.F. Korf and A.B. Rose -- Live-imaging and image processing of shoot apical meristems of Arabidopsis thaliana / G.V. Reddy and A. Roy-Chowdhury -- Computer vision as a tool to study plant development / E.P. Spalding -- Metabolomics of plant volatiles / A.V. Qualley and N. Dudareva -- Chemical genomics approaches in plant biology / L. Norambuena, N.V. Raikhel and G.R. Hicks -- Comparison of quantitative metabolite imaging tools and carbon-13 techniques for fluxomics / T. Niittylae [and others] -- Democratization and integration of genomic profiling tools / M.R. Sussman, E.L. Huttlin and D.J. Wohlbach.

Print version record.

As a fairly new and expansive area of study, plant systems biology has been approached by scientists from fields as varied as plant physiology and astrophysics, creating a wide variety of techniques and methods to further this vital research. In Plant Systems Biology, expert investigators provide cutting-edge chapters dealing with diverse subjects such as systems biology of plant gene expression to analysis of networks, pathways, specific statistical issues and novel computational tools, imaging-based tools as well as chemical genetic, metabolomic and integrative methods that cannot be easily pigeonholed. As a volume in the highly successful Methods in Molecular Biology series, this work provides the kind of detailed description and implementation advice that is crucial for getting optimal results. Authoritative and comprehensive, Plant Systems Biology is an ideal guide for all researchers who wish to contribute to the evolution of the vibrant field of plant biology.

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