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Computational Methods for Next Generation Sequencing Data Analysis (Wiley Series in Bioinformatics) By 作者: Ion Mandoiu – Alexander Zelikovsky ISBN-10 书号: 1118169484 ISBN-13 书号: 9781118169483 Edition 版本: 1 出版日期: 2016-10-03 pages 页数: (464 )
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COMPUTATIONAL
METHODS FOR NEXT
GENERATION
SEQUENCING DATA
ANALYSIS

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Wiley Series on
Bioinformatics: Computational Techniques and Engineering
A complete list of the titles in this series appears at the end of this volume.

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COMPUTATIONAL
METHODS FOR NEXT
GENERATION
SEQUENCING DATA
ANALYSIS
Edited by
ION I. M
˘
ANDOIU
ALEXANDER ZELIKOVSKY

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Copyright © 2016 by John Wiley &Sons, Inc. All rights reserved
Published by John Wiley &Sons, Inc., Hoboken, New Jersey
Published simultaneously in Canada
No part of this publication may be reproduced, stored in a retrieval system,ortransmitted in any form or
by anymeans, electronic, mechanical, photocopying, recording, scanning, or otherwise, except as
permitted under Section 107 or 108 of the 1976 United States Copyright Act, without either the prior
written permission
of the Publisher, or authorization through payment of the appropriate per-copy fee to
the Copyright Clearance Center, Inc., 222 Rosewood Drive, Danvers, MA 01923, (978) 750-8400, fax
(978) 750-4470, or on the web at www.copyright.com.Requests to the Publisher for permission should
be addressed to the Permissions Department, John Wiley &Sons, Inc., 111 River Street, Hoboken, NJ
07030, (201) 748-6011, fax (201) 748-6008, or online at http://www.wiley.com/go/permissions.
Limit of Liability/Disclaimer of Warranty: While the publisher and author have used
their bestefforts in
preparing this book, theymake no representations or warranties with respect to the accuracy or
completeness of the contents of this book and specically disclaim any implied warranties of
merchantability or tness for a particular purpose. No warrantymay be created or extended bysales
representatives or written salesmaterials.Theadvice and strategies contained herein may not be suitable
for your situation. Youshould
consult with a professional where appropriate. Neither the publisher nor
author shall be liable for any loss of prot or any other commercial damages,including but not limited to
special, incidental, consequential, or other damages.
For general information on our other products and services or for technical support, please contact our
Customer Care Department within the United States at (800) 762-2974, outside the United States at
(317) 572-3993 or fax (317) 572-4002.
Wiley alsopublishes its books in a variety of electronic formats.S
ome content that appears in print may
not be available in electronic formats.Formore information about Wiley products, visit ourwebsite at
www.wiley.com.
Library of Congress Cataloging-in-Publication Data:
Names:M
˘
andoiu, I. Ion, editor of compilation. | Zelikovsky, Alexander, editor
of compilation.
Title: Computational methods for next generation sequencing data analysis /
edited by Ion I. M
˘
andoiu, Alexander Zelikovsky.
Description: Hoboken, New Jersey : John Wiley &Sons,
2016. | Includes
bibliographical references and index.
Identiers: LCCN 2016010861 (print) | LCCN 2016014704 (ebook) | ISBN
9781118169483 (cloth) | ISBN 9781119272168 (pdf) | ISBN 9781119272175
(epub)
Subjects: LCSH: Nucleotide sequence–Methodology.|Nucleotide sequence–Data
processing.
Classication: LCC QP620 .C648 2016 (print) | LCC QP620 (ebook) | DDC
611/.0181663–dc23
LC record available at http://lccn.loc.gov/2016010861
Cover image courtesy of Gettyimages/Andrew Brookes
Printed in the United States of America
10987654321

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CONTENTS IN BRIEF
CONTRIBUTORS xix
PREFACE xxiii
ABOUT THE COMPANION WEBSITE xxv
PART I COMPUTING AND EXPERIMENTAL INFRASTRUCTURE
FOR NGS 1
1 Cloud Computing for Next-Generation Sequencing Data Analysis 3
Xuan Guo, Ning Yu, Bing Li, and Yi Pan
2 Introduction to the Analysis of Environmental Sequence
Information Using Metapathways 25
Niels W. Hanson, Kishori M. Konwar, Shang-Ju Wu, and Steven
J. Hallam
3 Pooling Strategy for Massive Viral Sequencing 57
Pavel Skums, Alexander Artyomenko, Olga Glebova, Sumathi Ramachandran,
David S. Campo, Zoya Dimitrova, Ion I. M
˘
andoiu, Alexander Zelikovsky,
and Yury Khudyakov
4 Applications of High-Fidelity Sequencing Protocol to RNA Viruses 85
Serghei Mangul, Nicholas C. Wu, Ekaterina Nenastyeva, Nicholas Mancuso,
Alexander Zelikovsky, Ren Sun, and Eleazar Eskin
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