Discovering Biomolecular Mechanisms With Computational Biology (molecular Biology Intelligence Unit)

MOLECULAR BIOLOGY INTELUGENCE UNIT Discovering Biomolecular Mechanisms with Computational Biology Frank Eisenhaber, M.D., Ph.D. Bioinformatics Group Institute of Molecular Pathology Vienna, Austria L A N D E S B I O S C I E N C E / EUREKAH.COM GEORGETOWN, TEXAS US.A. SPRINGER SCIENCE+BUSINESS MEDIA NEW YORK, NEW YORK U.SA DISCOVERING BIOMOLECULAR MECHANISMS WITH COMPUTATIONAL BIOLOGY Molecular Biology Intelligence Unit Landes Bioscience / Eurekah.com Springer Science+Business Media, LLC ISBN: 0-387-34527-2 Printed on acid-free paper. Copyright ©2006 Landes Bioscience and Springer Science+Business Media, LLC All rights reserved. This work may not be translated or copied in whole or in part without the written permission of the publisher, except for brief excerpts in connection with reviews or scholarly analysis. Use in connection with any form of information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed is forbidden. T h e use in the publication of trade names, trademarks, service marks and similar terms even if they are not identified as such, is not to be taken as an expression of opinion as to whether or not they are subject to proprietary rights. While the authors, editors and publisher believe that drug selection and dosage and the specifications and usage of equipment and devices, as set forth in this book, are in accord with current recommendations and practice at the time of publication, they make no warranty, expressed or implied, with respect to material described in this book. In view of the ongoing research, equipment development, changes in governmental regulations and the rapid accumulation of information relating to the biomedical sciences, the reader is urged to carcftiUy review and evaluate the information provided herein. Springer Science+Business Media, LLC, 233 Spring Street, New York, New York 10013, U.S.A. http://www.springer.com Please address all inquiries to the Publishers: Landes Bioscience / Eurekah.com, 810 South Church Street, Georgetown, Texas 78626, U.S.A. Phone: 512/ 863 7762; FAX: 512/ 863 0081 http://www.eurekah.com http://www.landesbioscience.com Printed in the United States of America. 9 8 7 6 5 4 3 2 1 Libraiy of Congress Cataloging-in-Publlcation Data Discovering biomolecular mechanisms with computational biology / [edited by] Frank Eisenhaber. p. ; cm. — (Molecular biology intelligence unit) Includes bibliographical references and index. ISBN 0-387-34527-2 (alk. paper) 1. Biomolecules—Structure. 2. Bioinformatics. 3. Molecular biology. I. Eisenhaber, Frank. II. Series: Molecular biology intelligence unit (Unnumbered) [DNLM: 1. Computational Biology—methods. 2. Genomics—methods. 3. Molecular Biology—methods. Q U 26.5 D611 2006] Q P 5 1 7 . M 3 D 5 7 2006 572-dc22 2006012698 Dedicated to Natalya Georgievna Esipova and Vladimir Gayevich Tumanyan from the Engelhardt Institute of Molecular Biology in Moscow, CONTENTS Introduction Bioinformatics: Mystery, Astrology or Service Technology? Frank Eisenhaber Mystery Astrology Service Technology 1 2 6 7 Section I: Deriving Biologica