Next-generation DNA sequencing informatics / ed. by S.M.Brown. - Cold Spring Harbor (New York): Cold Spring Harbor Laboratory Press, 2013. - xiii, 241 p.: ill. - Bibliogr. at the end of the chapters. - Ind.: p.231-241. - ISBN 978-1-936113-87-3  Место хранения:   02 | Отделение ГПНТБ СО РАН | Новосибирск

Оглавление / Contents

Preface ....................................................... vii Acknowledgments ................................................ ix About the Authors .............................................. xi 1 Introduction to DNA Sequencing ............................... 1 Stuart M. Brown 2 History of Sequencing Informatics ........................... 27 Stuart M. Brown 3 Visualization of Next-Generation Sequencing Data ............ 45 Phillip Ross Smith, Kranti Konganti, and Stuart M. Brown 4 DNД Sequence Alignment ...................................... 65 Efstratios Efstathiadis 5 Genome Assembly Using Generalized de Bruijn Digraphs ........ 83 D. Frank Hsu 6 De Novo Assembly of Bacterial Genomes from Short Sequence Reads ....................................................... 97 Silvia Argimón and Stuart M. Brown 7 Genome Annotation .......................................... 111 Steven Shen 8 Using NGS to Detect Sequence Variants ...................... 129 Jinhua Wang, Zuojian Tang, and Stuart M. Brown 9 ChlP-seq ................................................... 139 Zuojian Tang, Christina Schweikert, D. Frank Hsu, and Stuart M. Brown 10 RNA Sequencing with NGS .................................... 171 Stuart M. Brown, Jeremy Goecks, and James Taylor 11 Metagenomics ............................................... 187 Alexander Alekseyenko and Stuart M. Brown 12 High-Performance Computing in DNA Sequencing Informatics ... 195 Efstratios Efstathiadis and Eric R. Peskin Glossary ...................................................... 217 Glossary ...................................................... 217 Index ......................................................... 231