Bioinformatics for High Throughput Sequencing [Paperback]

Next generation sequencing is revolutionizing molecular biology. Owing to this new technology it is now possible to carry out a panoply of experiments at an unprecedented low cost and high speed. These go from sequencing whole genomes, transcriptomes and small non-coding RNAs to description of methylated regions, identification protein  DNA interaction sites and detection of structural variation. The generation of gigabases of sequence information for each of this huge bandwidth of applications in just a few days makes the development of bioinformatics applications for next generation sequencing data analysis as urgent as challenging.

This book looks at all aspects of next generation sequencing data analysis. It offers guidelines for the comprehension of the main data analysis steps and provides new insights into existing software and inspiration to develop new applications.Preface.- Introduction.- Overview of Sequencing Technology Platforms.- Applications of High Throughput Sequencing.- Computational Infrastructure and Basic Data Analysis for High-Throughput Sequencing.- Base-Calling for Bioinformaticians.- De Novo Short Read Assembly.- Short Read Mapping.- DNA-Protein Interaction Analysis (ChIP-Seq).- Genome-wide Methylation Maps.- Differential Expression for RNA Sequencing (RNA-seq) Data: Mapping, Summarization, Statistical Analysis and Experimental Design.- MicroRNA Expression Profiling and Discovery.- Dissecting Splicing-Regulatory Network by Integrative Analysis of HITS-CLIP data.- Analysis of Metagenomics Data.- High Throughput Sequencing Data Analysis Software: Current State and Future Developments.- Index.

The ultimate goal of bioinformatics is to extract biological knowledge out of the large amount of information generated by the scientific community. The chapters compiled in this volume will allow both biologists and computer scientists to understand the significance and potential of this discipline in the analysis of high throul3œ