Bioinformatics for High Throughput Sequencing

1. Introduction
Naiara Rodríguez-Ezpeleta, Ana M. Aransay

2. Overview of Sequencing Technology Platforms
Samuel Myllykangas, Jason Buenrostro, Hanlee P. Ji

3. Applications of High-Throughput Sequencing
Rodrigo Goya, Irmtraud M. Meyer, Marco A. Marra

4. Computational Infrastructure and Basic Data Analysis for High-Throughput Sequencing
David Sexton

5. Base-Calling for Bioinformaticians
Mona A. Sheikh, Yaniv Erlich

6. De Novo Short-Read Assembly
Douglas W. Bryant, Todd C. Mockler

7. Short-Read Mapping
Paolo Ribeca

8. DNA–Protein Interaction Analysis (ChIP-Seq)
Geetu Tuteja

9. Generation and Analysis of Genome-Wide DNA Methylation Maps
Martin Kerick, Axel Fischer, Michal-Ruth Schweiger

10. Differential Expression for RNA Sequencing (RNA-Seq) Data: Mapping, Summarization, Statistical Analysis, and Experimental Design
Matthew D. Young, Davis J. McCarthy, Matthew J. Wakefield, Gordon K. Smyth, Alicia Oshlack, Mark D. Robinson

11. MicroRNA Expression Profiling and Discovery
Michael Hackenberg

12. Dissecting Splicing Regulatory Network by Integrative Analysis of CLIP-Seq Data
Michael Q. Zhang

13. Analysis of Metagenomics Data
Elizabeth M. Glass, Folker Meyer

14. High-Throughput Sequencing Data Analysis Software: Current State and Future Developments
Konrad Paszkiewicz, David J. Studholme

Nyckelord: Life Sciences, Bioinformatics, Human Genetics, Biomedicine general