van Dijk Plant Genomics Databases

Methods and Protocols
1. Auflage 2017
ISBN: 978-1-4939-6658-5
Verlag: Springer US
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, 336 Seiten

Reihe: Springer Protocols

This volume introduces databases containing the results from the recent revolution in sequencing technologies. Chapters in Plant Genomics Databases: Methods and Protocols describe database content, as well as typical use-cases. Some chapters explore databases that primarily present genome sequences focusing on one or a few related species, while others include additional datatypes and/or data from various plant species. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls.

Cutting-edge and comprehensive, Plant Genomics Databases: Methods and Protocols is a valuable resource for providing clear guidance in accessing an important collection of plant databases that can be used to add biological value to genomic data.

Zielgruppe

Professional/practitioner

Autoren/Hrsg.

van Dijk, Aalt D.J

Inhaltsverzeichnis

Ensembl Plants: Integrating Tools for Visualizing, Mining and Analyzing Plant Genomics Data.- PGSB/MIPS PlantsDB Database Framework for the Integration and Analysis of Plant Genome Data.- Plant Genome DataBase Japan (PGDBj).- FLAGdb++: A Bioinformatic Environment to Study and Compare Plant Genomes.- Mining Plant Genomic and Genetic Data Using the GnpIS Information System.- The Bio-Analytic Resource for Plant Biology.- The Evolution of Soybean Knowledge Base (SoyKB).- Using TropGeneDB: a Database Containing Data on Molecular Markers, QTLs, Maps, Genotypes, and Phenotypes for Tropical Crops.- Species-Specific Genome Sequence Databases: A Practical Review.- A Guide to the PLAZA 3.0 Plant Comparative Genomics Database.- Exploring Plant Co-Expression and Gene-Gene Interactions with CORNET 3.0.- PlaNet: Comparative Co-Expression Network Analyses for Plants.- Practical Utilization of OryzaExpress and Plant Omics Data Center Databases to Explore Gene Expression Networks in Oryza sativa and Other Plant Species.- Pathway Analysis and Omics Data Visualization using Pathway Genome Databases: FragariaCyc, A Case Study.- CSGRqtl: A Comparative Quantitative Trait Locus Database for Saccharinae Grasses.- Plant Genome Duplication Database.- Variant Effect Prediction Analysis using Resources Available at Gramene Database.- Plant Promoter Database.- Construction of the Leaf Senescence Database and Functional Assessment of Senescence-Associated Genes.