Belostotsky Plant Systems Biology

2009
ISBN: 978-1-60327-563-7
Verlag: Humana Press
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, Band 553, 408 Seiten, eBook

Reihe: Methods in Molecular Biology

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 ™ series, this work provides the kind of detailed description and implementation advice that is crucial for getting optimal results.

Authoritative and comprehensive, is an ideal guide for all researchers who wish to contribute to the evolution of the vibrant field of plant biology.

Zielgruppe

Professional/practitioner

Autoren/Hrsg.

Belostotsky, Dmitry A.

Inhaltsverzeichnis

Part I: Systems Biology of Plant Gene Expression

1. Gene-Specific and Genome-Wide ChIP Approaches to Study Plant Transcriptional Networks
Kengo Moroashi, Zidian Xie, and Erich Grotewold

2. Genome-Wide Analysis of RNA-Protein Interactions in Plants
Alice Barkan

3. Whole-Genome Microarrays: Applications and Technical Issues
Brian D. Gregory and Dmitry A. Belostotsky

4. Manipulating Large Scale Arabidopsis Microarray Expression Data: Identifying Dominant Expression Patterns and Biological Process Enrichment
David A. Orlando, Siobhan M. Brady, Jeremy D. Koch, José R. Dinneny, and Philip N. Benfey

5. Applications of Ultra-High Throughput Sequencing
Samuel Fox, Sergei Filichkin, and Todd C. Mockler

6. Isolation of Plant Polysomal mRNA by Differential Centrifugation and Ribosome Immunopurification Methods
Angelika Mustroph, Piyada Juntawong, and Julia Bailey-Serres

7. Chromatin Charting: Global Mapping of Epigenetic Effects
Chongyuan Luo and Eric Lam

8. Clone-Based Functional Genomics
Annick Bleys, Mansour Karimi, and Pierre Hilson

Part II: Networks, Pathways, Statistical Issues, and Novel Computational Tools

9. Challenges and Approaches to Statistical Design and Inference in High Dimensional Investigations
Gary L. Gadbury, Karen A. Garrett, and David B. Allison

10. Discrete Dynamic Modeling with Asynchronous Update, or How to Model Complex Systems in the Absence of Quantitative Information

Sarah M. Assmann and Réka Albert

11. Quantification of Variation in Expression Networks

Daniel J. Kliebenstein

12. Coexpression Analysis of Metabolic Pathways in Plants
Ann Loraine

13. Integration of Metabolic Reactions and GeneRegulation
Chen-Hsiang Yeang

14. Applying Word-Based Algorithms: The IMEter
Ian F. Korf and Alan B. Rose

Part III: Imaging

15. Live-Imaging and Image Processing of Shoot Apical Meristems of Arabidopsis thaliana
G. Venugopala Reddy and A. Roy-Chowdhury

16. Computer Vision as a Tool to Study Plant Development
Edgar P. Spalding

Part IV: Chemical Genetic, Metabolomic, and Integrative Methods for Plant Systems Biology

17. Metabolomics of Plant Volatiles

Anthony V. Qualley and Natalia Dudareva

18. Chemical Genomics Approaches in Plant Biology
Lorena Norambuena, Natasha V. Raikhel, and Glenn R. Hicks

19. Comparison of Quantitative Metabolite Imaging Tools and Carbon-13 Techniques for Fluxomics
Totte Niittylae, Bhavna Chaudhuri, Uwe Sauer, and Wolf B. Frommer

20. Democratization and Integration of Genomic Profiling Tools

Michael R. Sussman, Edward L. Huttlin, and Dana J. Wohlbach