RNA-seq Data Analysis: A Practical Approach

Eija Korpelainen, Jarno Tuimala, Panu Somervuo, Mikael Huss, Garry Wong

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September 19, 2014 by Chapman and Hall/CRC
Reference - 322 Pages - 55 B/W Illustrations
ISBN 9781466595002 - CAT# K20702
Series: Chapman & Hall/CRC Mathematical and Computational Biology

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Features

  • Covers the whole RNA-seq data analysis workflow, from quality control, mapping, and assembly to statistical testing and pathway analysis
  • Shows how to carry out statistical analyses with R and tools from the Bioconductor project
  • Explains the discovery and functional analysis of small noncoding RNAs using web-based and freely downloadable tools
  • Includes many practical examples accessible to students, advanced researchers, and noncomputer-savvy wet lab biologists

Summary

The State of the Art in Transcriptome Analysis
RNA sequencing (RNA-seq) data offers unprecedented information about the transcriptome, but harnessing this information with bioinformatics tools is typically a bottleneck. RNA-seq Data Analysis: A Practical Approach enables researchers to examine differential expression at gene, exon, and transcript levels and to discover novel genes, transcripts, and whole transcriptomes.

Balanced Coverage of Theory and Practice
Each chapter starts with theoretical background, followed by descriptions of relevant analysis tools and practical examples. Accessible to both bioinformaticians and nonprogramming wet lab scientists, the examples illustrate the use of command-line tools, R, and other open source tools, such as the graphical Chipster software.

The Tools and Methods to Get Started in Your Lab
Taking readers through the whole data analysis workflow, this self-contained guide provides a detailed overview of the main RNA-seq data analysis methods and explains how to use them in practice. It is suitable for researchers from a wide variety of backgrounds, including biology, medicine, genetics, and computer science. The book can also be used in a graduate or advanced undergraduate course.

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