Plant Bioinformatics Methods and Protocols 1st Edition by David Edwards 9781588296535 1588296539
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Product details:
ISBN 10: 1588296539
ISBN 13: 9781588296535
Author: David Edwards
Bioinformatics is a new and rapidly evolving field of research that is being driven by the development and application of various ‘omics technologies. Plant Bioinformatics focuses on applied bioinformatics with specific applications to crops and model plants. Chapters in this new volume are aimed at researchers developing bioinformatics databases and tools, detailing commonly applied database formats and biology-focused scripting languages. These will provide both beginners and experienced bioinformatics researchers with the necessary skills to develop and apply bioinformatics tools for their specialist area of plant research. Each chapter includes practical examples and highlight common problems encountered in bioinformatics analysis. Protocols in this volume detail EMBL Nucleotide Sequence, TAIR database, VarvEST, MIPS, BGI-RIS V2, BarleyBase/PLEXdb, SAGE, KEGG, and more. Plant biologists who have an interest in or requirement for the accessing and manipulation of the huge amount of data being generated by high throughput technologies will find this new volume to be an immeasurable aid in their research.
Table of contents:
Chapter 1: The EMBL nucleotide sequence and genome reviews databases
Chapter 2: Using GenBank
Chapter 3: A collection of plant-specific genomic data and resources at NCBI
Chapter 4: UniProtKB/Swiss-Prot
Chapter 5: Plant database resources at The Institute for Genomic Research
Chapter 6: MIPS plant genome information resources
Chapter 7: HarvEST
Chapter 8: The TAIR database
Chapter 9: AtEnsEMBL
Chapter 10: Accessing integrated Brassica genetic and genomic data using the BASC server
Chapter 11: Leveraging model legume information to find candidate genes for soybean sudden death syndrome using the Legume Information System
Chapter 12: Legume resources: MtDB and Medicago.org
Chapter 13: BGI-RIS V2
Chapter 14: GrainGenes
Chapter 15: Gramene
Chapter 16: MaizGDB
Chapter 17: BarleyBase/PLEXdb
Chapter 18: Reaping the benefits of SAGE
Chapter 19: Methods for analysis of gene expression in plants using MPSS
Chapter 20: Metabolomics data analysis, visualization, and integration
Chapter 21: KEGG bioinformatics resource for plant genomics research
Chapter 22: International Crop Information System for germplasms data management
Chapter 23: Automated discovery of single nucleotide polymorphism and simple sequence repeat molecular genetic markers
Chapter 24: Methods for gene ontology annotation
Chapter 25: Gene structure annotation at PlantGDB
Chapter 26: An introduction to BioPerl
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Tags: David Edwards, Bioinformatics, Plant, Methods