Bioinformatics for high throughput sequencing / ed. by N.Rodríguez-Ezpeleta, M.Hackenberg, A.M.Aransay. - New York: Springer, 2012. - xi, 255 p.: col. ill. - Ind.: p.249-255. - ISBN 978-1-4614-0781-2  Место хранения:   056 | Институт химической биологии и фундаментальной медицины CO РАН | Новосибирск| Библиотека

Оглавление / Contents

1 Introduction ................................................. 1 Naiara Rodríguez-Ezpeleta and Ana M. Aransay 2 Overview of Sequencing Technology Platforms ................. 11 Samuel Myllykangas, Jason Buenrostro, and Hanlee P. Ji 3 Applications of High-Throughput Sequencing .................. 27 Rodrigo Goya, Irmtraud M. Meyer, and Marco A. Marra 4 Computational Infrastructure and Basic Data Analysis for High-Throughput Sequencing .................................. 55 David Sexton 5 Base-Calling for Bioinformaticians .......................... 67 Mona A. Sheikh and Yaniv Erlich 6 De Novo Short-Read Assembly ................................. 85 Douglas W. Bryant Jr. and Todd C. Mockler 7 Short-Read Mapping ......................................... 107 Paolo Ribeca 8 DNA-Protein Interaction Analysis (ChIP-Seq) ................ 127 Geetu Tuteja 9 Generation and Analysis of Genome-Wide DNA Methylation Maps ....................................................... 151 Martin Kerick, Axel Fischer, and Michal-Ruth Schweiger 10 Differential Expression for RNA Sequencing (RNA-Seq) Data: Mapping, Summarization, Statistical Analysis, and Experimental Design .................................... 169 Matthew D. Young, Davis J. McCarthy, Matthew J. Wakefield, Gordon K. Smyth, Alicia Oshlack, and Mark D. Robinson 11 MicroRNA Expression Profiling and Discovery ................ 191 Michael Hackenberg 12 Dissecting Splicing Regulatory Network by Integrative Analysis of CLIP-Seq Data .................................. 209 Michael Q. Zhang 13 Analysis of Metagenomics Data .............................. 219 Elizabeth M. Glass and Folker Meyer 14 High-Throughput Sequencing Data Analysis Software: Current State and Future Developments ...................... 231 Konrad Paszkiewicz and David J. Studholme Index ......................................................... 249