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Field Guidelines for Genetic Experimental Designs in High-Throughput Sequencing

✍ Scribed by Ana M. Aransay, José Luis Lavín Trueba (eds.)

Publisher
Springer International Publishing
Year
2016
Tongue
English
Leaves
404
Edition
1
Category
Library
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✦ Synopsis

High throughput sequencing (HTS) technologies have conquered the genomics and epigenomics worlds. The applications of HTS methods are wide, and can be used to sequence everything from whole or partial genomes, transcriptomes, non-coding RNAs, ribosome profiling, to single-cell sequencing. Having such diversity of alternatives, there is a demand for information by research scientists without experience in HTS that need to choose the most suitable methodology or combination of platforms and to define their experimental designs to achieve their specific objectives. Field Guidelines for Genetic Experimental Designs in High-Throughput Sequencing aims to collect in a single volume all aspects that should be taken into account when HTS technologies are being incorporated into a research project and the reasons behind them. Moreover, examples of several successful strategies will be analyzed to make the point of the crucial features. This book will be of use to all scientist that are unfamiliar with HTS and want to incorporate such technologies to their research.

✦ Table of Contents

Front Matter....Pages i-xi
The High-Throughput Sequencing Technologies Triple-W Discussion: Why Use HTS, What Is the Optimal HTS Method to Use, and Which Data Analysis Workflow to Follow....Pages 1-12
Whole-Genome Sequencing Recommendations....Pages 13-41
Targeted DNA Region Re-sequencing....Pages 43-68
Transcriptome Profiling Strategies....Pages 69-104
Differential mRNA Alternative Splicing....Pages 105-119
microRNA Discovery and Expression Analysis in Animals....Pages 121-142
Analysis of Long Noncoding RNAs in RNA-Seq Data....Pages 143-174
Ribosome Profiling....Pages 175-195
Genome-Wide Analysis of DNA Methylation Patterns by High-Throughput Sequencing....Pages 197-221
Characterization of DNA-Protein Interactions: Design and Analysis of ChIP-Seq Experiments....Pages 223-260
PAR-CLIP: A Genomic Technique to Dissect RNA-Protein Interactions....Pages 261-289
Metagenomic Design and Sequencing....Pages 291-312
A Hitchhiker’s Guide to Metatranscriptomics....Pages 313-342
Eukaryotic Single-Cell mRNA Sequencing....Pages 343-365
Eukaryotic Single-Cell DNA Sequencing....Pages 367-384
Submitting Data to a Public Repository, the Final Step of a Successful HTS Experiment....Pages 385-391
Back Matter....Pages 393-399

✦ Subjects

Human Genetics; Systems Biology; Biostatistics

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