Cancer Systems Biology Methods and Protocols
This book comprises protocols describing systems biology methodologies and computational tools, offering a variety of ways to analyze different types of high-throughput cancer data. Chapters give an overview over data types available in large-sc
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Louise von Stechow Editor
Cancer Systems Biology Methods and Protocols
METHODS
IN
MOLECULAR BIOLOGY
Series Editor John M. Walker School of Life and Medical Sciences, University of Hertfordshire, Hatfield, Hertfordshire AL10 9AB, UK
For further volumes: http://www.springer.com/series/7651
Cancer Systems Biology Methods and Protocols
Edited by
Louise von Stechow NNF Center for Protein Research, University of Copenhagen Copenhagen, Denmark
Editor Louise von Stechow NNF Center for Protein Research University of Copenhagen Copenhagen, Denmark
ISSN 1064-3745 ISSN 1940-6029 (electronic) Methods in Molecular Biology ISBN 978-1-4939-7492-4 ISBN 978-1-4939-7493-1 (eBook) https://doi.org/10.1007/978-1-4939-7493-1 Library of Congress Control Number: 2017961108 © Springer Science+Business Media LLC 2018 Chapters 5, 6 and 7 are licensed under the terms of the Creative Commons Attribution 4.0 International License (http:// creativecommons.org/licenses/by/4.0/). For further details see license information in the chapters. This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made. The publisher remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. Printed on acid-free paper This Humana Press imprint is published by Springer Nature The registered company is Springer ScienceþBusiness Media, LLC The registered company address is: 233 Spring Street, New York, NY 10013, U.S.A.
Preface Cancer is a highly complex disease that is often characterized by vast changes in the genetic and epigenetic landscape. Those changes result in altered protein expression levels in tumors compared to healthy tissues. Moreover, posttranscriptional alterations lead to deregulation of signaling processes, and altered metabolic pathways can produce aberrant metabolic signatures in cancer cells. A wealth of high-throughput information has emerged over the last decade, including global measurements of genes, proteins, and metabolites, as well as many other molecular sp
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