Plant Bioinformatics: Methods and Protocols
This new edition focuses on applied bioinformatics with specific applications to crops, model and diverse plant species. The scope extends from the genome to the phenome and includes aspects of data management, analysis, visualization, and integration. The methods and approaches found within reflect the increasing use of high performance computing infrastructure to analyze and manage the enormous volume of data being generated by the latest high throughput technologies, the establishment and further maturation of major database systems and repositories, as well as the introduction of new approaches such as machine learning. Written for the highly successful Methods in Molecular Biology series, the chapters include the kind of detailed implementation advice that leads to successful research results.
Authoritative and up-to-date, Plant Bioinformatics: Methods and Protocols, Third Edition will aid researchers exploring the broad comparison of species that will drive future plant research, crop breeding, and bioinformatics developments that allow us to understand and manipulate the heritable differences between individuals and populations.
Chapters 2, 3, and 26 are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
1122227530
Plant Bioinformatics: Methods and Protocols
This new edition focuses on applied bioinformatics with specific applications to crops, model and diverse plant species. The scope extends from the genome to the phenome and includes aspects of data management, analysis, visualization, and integration. The methods and approaches found within reflect the increasing use of high performance computing infrastructure to analyze and manage the enormous volume of data being generated by the latest high throughput technologies, the establishment and further maturation of major database systems and repositories, as well as the introduction of new approaches such as machine learning. Written for the highly successful Methods in Molecular Biology series, the chapters include the kind of detailed implementation advice that leads to successful research results.
Authoritative and up-to-date, Plant Bioinformatics: Methods and Protocols, Third Edition will aid researchers exploring the broad comparison of species that will drive future plant research, crop breeding, and bioinformatics developments that allow us to understand and manipulate the heritable differences between individuals and populations.
Chapters 2, 3, and 26 are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
129.99 In Stock
Plant Bioinformatics: Methods and Protocols

Plant Bioinformatics: Methods and Protocols

Plant Bioinformatics: Methods and Protocols

Plant Bioinformatics: Methods and Protocols

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Overview

This new edition focuses on applied bioinformatics with specific applications to crops, model and diverse plant species. The scope extends from the genome to the phenome and includes aspects of data management, analysis, visualization, and integration. The methods and approaches found within reflect the increasing use of high performance computing infrastructure to analyze and manage the enormous volume of data being generated by the latest high throughput technologies, the establishment and further maturation of major database systems and repositories, as well as the introduction of new approaches such as machine learning. Written for the highly successful Methods in Molecular Biology series, the chapters include the kind of detailed implementation advice that leads to successful research results.
Authoritative and up-to-date, Plant Bioinformatics: Methods and Protocols, Third Edition will aid researchers exploring the broad comparison of species that will drive future plant research, crop breeding, and bioinformatics developments that allow us to understand and manipulate the heritable differences between individuals and populations.
Chapters 2, 3, and 26 are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Product Details

ISBN-13: 9781071620694
Publisher: Springer US
Publication date: 01/18/2023
Series: Methods in Molecular Biology , #2443
Edition description: Third Edition 2022
Pages: 544
Product dimensions: 7.01(w) x 10.00(h) x (d)

Table of Contents

Preface     v
Contributors     xi
The EMBL Nucleotide Sequence and Genome Reviews Databases   Peter Sterk   Tamara Kulikova   Paul Kersey   Rolf Apweiler     1
Using GenBank   David Wheeler     23
A Collection of Plant-Specific Genomic Data and Resources at NCBI   Tatiana Tatusova   Brian Smith-White   James Ostell     61
UniProtKB/Swiss-Prot   Emmanuel Boutet   Damien Lieberherr   Michael Tognolli   Michel Schneider   Amos Bairoch     89
Plant Database Resources at The Institute for Genomic Research   Agnes P. Chan   Pablo D. Rabinowicz   John Quackenbush   C. Robin Buell   Chris D. Town     113
MIPS Plant Genome Information Resources   Manuel Spannagl   Georg Haberer   Rebecca Ernst   Heiko Schoof   Klaus F. X. Mayer     137
HarvEST   Timothy J. Close   Steve Wanamaker   Mikeal L. Roose   Matthew Lyon     161
The TAIR Database   Rebecca L. Poole     179
AtEnsEMBL   Nick James   Neil Graham   Debbie Clements   Beatrice Schildknecht   Sean May     213
Accessing Integrated Brassica Genetic and Genomic Data Using the BASC Server   Christopher G. Love   David Edwards     229
Leveraging Model Legume Information to Find Candidate Genes for Soybean Sudden Death Syndrome Using the Legume Information System   Michael D. Gonzales   Kamal Gajendran   Andrew D. Farmer   Eric Archuleta   William D. Beavis     245
Legume Resources: MtDB and Medicago.Org   Ernest F. Retzel   James E. Johnson   John A. Crow   Anne F. Lamblin   Charles E. Paule     261
BGI-RIS V2   Ximiao He   Jun Wang     275
GrainGenes   Helen O'Sullivan     301
Gramene   Doreen Ware     315
MaizeGDB   Carolyn J. Lawrence     331
BarleyBase/PLEXdb   Roger P. Wise   Rico A. Caldo   Lu Hong   Lishuang Shen   Ethalinda Cannon   Julie A. Dickerson     347
Reaping the Benefits of SAGE   Stephen J. Robinson   Justin D. Guenther   Christopher T. Lewis   Matthew G. Links   Isobel A.P. Parkin     365
Methods for Analysis of Gene Expression in Plants Using MPSS   Kan Nobuta   Kalyan Vemaraju   Blake C. Meyers     387
Metabolomics Data Analysis, Visualization, and Integration   Lloyd W. Sumner   Ewa Urbanczyk-Wochniak   Corey D. Broeckling     409
KEGG Bioinformatics Resource for Plant Genomics Research   Ali Masoudi-Nejad   Susumu Goto   Takashi R. Endo   Minoru Kanehisa     437
International Crop Information System for Germplasm Data Management   Arllet Portugal   Ranjan Balachandra   Thomas Metz   Richard Bruskiewich   Graham McLaren     459
Automated Discovery of Single Nucleotide Polymorphism and Simple Sequence Repeat Molecular Genetic Markers   Jacqueline Batley   Erica Jewell   David Edwards     473
Methods for Gene Ontology Annotation   Emily Dimmer   Tanya Z. Berardini   Daniel Barrell   Evelyn Camon     495
Gene Structure Annotation at PlantGDB   Volker Brendel     521
An Introduction to BioPerl   Jason E. Stajich     535
Index     549
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