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to Bioinformatics A Theoretical and Practical Approach Edited by Stephen A. Krawetz, PhD Wayne State University School of Medicine, Detroit MI and David D. Womble, PhD Wayne State University School of Medicine, Detroit, MI ~ Springer Science+ ~ Business Media, LLC © 2003 Springer Science+Business Media New York Originally published by Humana Press !ne. in 2003 Softcover reprint of the hardcover 1 st edition 2003 humanapress.com Ali rights reserved. No part of this book may be reproduced, stored in a retrieval system, or transmitted in any form or by any means, electronic, mechanical, photocopying, microfilming, recording, or otherwise without written permission from the Publisher. Ali papers, comments, opinions, conclusions, or recommendations are those of the author(s), and do not necessarily reflect the views of the publisher. This publication is printed on acid-free paper. G) ANSI Z39.48-1984 (American Standards Institute) Permanence of Paper for Printed Library Materials. Production Editor: Mark J. Breaugh. Cover design by Patricia F. Cleary and Paul A. Thiessen. Cover illustration by Paul A. Thiessen, chemicalgraphics.com.
List of contents
Part I. Biochemistry, Cell, and Molecular BiologyA. The CellNucleic Acids and Proteins: Modern Linguistics for the Genomics and Bioinformatics EraBradley C. HymanStructure and Function of Cell OrganellesJon HolyCell SignalingDaniel A. RappoleeB. Transcription and TranslationDNA Replication, Repair, and RecombinationLinda B. BloomTranscription, RNA Processing, and TranslationThomas P. Yang and Thomas W. O'BrienPart II. Molecular GeneticsA. GenomicsEpigenetic Mechanisms Regulating Gene ExpressionJohn R. McCarreyGene Families and EvolutionBen F. KoopRepetitive DNA: Detection, Annotation, and AnalysisJerzy JurkaMolecular Genetics of Disease and the Human Genome ProjectParomita Deb-Rinker and Stephen W. SchererB. Clinical Human GeneticsHeredityC. A. RuparThe Clinical Genetics DatabasesPeter J. BridgePopulation GeneticsJill S. Barnholtz-SloanPart III. The UNIX Operating SystemA. Basics and InstallationIntroduction to UNIX for BiologistsDavid D. WombleInstallation of the Sun Solaris(TM) Operating EnvironmentBryon CampbellSun System AdministrationBryon CampbellB. Managing Bioinformatics ToolsInstalling Bioinformatics Software in a Server-Based Computing EnvironmentBrian FristenskyManagement of a Server-Based Bioinformatics ResourceBrian FristenskyC. Command Line Sequence AnalysisGCG File ManagementSittichoke SaisanitGCG Sequence AnalysisSittichoke SaisanitPart IV. Computer ApplicationsA. Management and Analysis of DNA Sequencing Projects and SequencesManaging Sequencing Projects in the GAP4 EnvironmentRodger Staden, David P. Judge, and James K. BonfieldOLIGO Primer Analysis SoftwareJohn D. Offerman and WojciechRychlikStatistical Modeling of DNA Sequences and PatternsGautam B. SinghStatistical Mining of the Matrix Attachment Regions in Genomic SequencesGautam B. SinghAnalyzing Sequences Using the Staden Package and EMBOSSRodger Staden, David P. Judge, and James K. BonfieldB. The Genome Database: Analysis and Similarity SearchingEnsembl: An Open-Source Software Tool for Large-Scale Genome AnalysisJames W. Stalker and Anthony V. CoxThe PIR for Functional Genomics and ProteomicsCathy H. WuSequence Similarity and Database SearchingDavid S. WishartGCG Database SearchingDavid J. HeardC. Identifying Functional and Structural Sequence ElementsPattern Discovery: Methods and SoftwareBrona Brejová, Tomás Vinar, and Ming LiThe Role of Transcription Factor Binding Sites in Promoters and Their In Silico DetectionThomas WernerAn Introduction to Multiple Sequence Alignment and AnalysisSteven M. Thompson3D Molecular Visualization with Protein ExplorerEric MartzMultiple Sequence Alignment and Analysis: The SeqLab Interface: A Practical GuideSteven M. ThompsonD. Analysis of Gene Expression: Microarrays and Other ToolsOverview of the Tools for Microarray Analysis: Transcription Profiling, DNA Chips, and Differential DisplayJeffrey A. KramerMicroarrays: Tools for Gene Expression AnalysisSorin DraghiciKnowledge Discovery from the Human TranscriptomeKousaku Okubo and Teruyoshi HishikiPart V. AppendicesAppendix 1: CD ContentsAppendix 2: A Collection of Useful Bioinformatic Tools and Molecular TablesAppendix 3: Simple UNIX CommandsIndex
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Womble, PhD Wayne State University School of Medicine, Detroit, MI ~ Springer Science+ ~ Business Media, LLC © 2003 Springer Science+Business Media New York Originally published by Humana Press !ne. in 2003 Softcover reprint of the hardcover 1 st edition 2003 humanapress.com Ali rights reserved.
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"...contains very valuable information on a wide range of topics related to bioinformatics research." - Heredity
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"...contains very valuable information on a wide range of topics related to bioinformatics research." - Heredity
