Click to have a closer look
About this book
About this book
The enormous complexity of biological systems at the molecular level must be answered with powerful computational methods. Computational biology is a young field, but has seen rapid growth and advancement over the past few decades. Surveying the progress made in this multidisciplinary field, the Handbook of Computational Molecular Biology offers comprehensive, systematic coverage of the various techniques and methodologies currently available.
Accomplished researcher Srinivas Aluru leads a team of experts from around the world to produce this groundbreaking, authoritative reference. With discussions ranging from fundamental concepts to practical applications, this book details the algorithms necessary to solve novel problems and manage the massive amounts of data housed in biological databases throughout the world.
Divided into eight sections for convenient searching, the handbook covers methods and algorithms for sequence alignment, string data structures, sequence assembly and clustering, genome-scale computational methods in comparative genomics, evolutionary and phylogenetic trees, microarrays and gene expression analysis, computational methods in structural biology, and bioinformatics databases and data mining.
The Handbook of Computational Molecular Biology is the first resource to integrate coverage of the broad spectrum of topics in computational biology and bioinformatics. It supplies a quick-reference guide for easy implementation and provides a strong foundation for future discoveries in the field.
SEQUENCE ALIGNMENTSPairwise Sequence Alignments; Benjamin N. Jackson and Srinivas AluruSpliced Alignment and Similarity-Based Gene Recognition; Alexey D. Neverov, Andrey A. Mironov, and Mikhail S. GelfandMultiple Sequence Alignment; Osamu Gotoh, Shinsuke Yamada, and Tetsushi YadaParametric Sequence Alignment; David Fern?ndez-Baca and Balaji VenkatachalamSTRING DATA STRUCTURESLookup Tables, Suffix Trees and Suffix Arrays; Srinivas AluruSuffix Tree Applications in Computational Biology; Pang Ko and Srinivas AluruEnhanced Suffix Arrays and Applications; Mohamed I. Abouelhoda, Stefan Kurtz, and Enno OhlebuschGENOME ASSEMBLY AND EST CLUSTERINGComputational Methods for Genome Assembly; Xiaoqiu HuangAssembling the Human Genome; Richa AgarwalaComparative Methods for Sequence Assembly; Vamsi VeeramachaneniInformation Theoretic Approach to Genome Reconstruction; Suchendra Bhandarkar, Jinling Huang, and Jonathan ArnoldExpressed Sequence Tags: Clustering and Applications; Anantharaman Kalyanaraman and Srinivas AluruAlgorithms for Large-Scale Clustering and Assembly of Biological Sequence Data; Scott J. Emrich, Anantharaman Kalyanaraman, and Srinivas AluruGENOME-SCALE COMPUTATIONAL METHODSComparisons of Long Genomic Sequences: Algorithms and Applications; Michael Brudno and Inna DubchakChaining Algorithms and Applications in Comparative Genomics; Enno Ohlebusch and Mohamed I. AbouelhodaComputational Analysis of Alternative Splicing; Mikhail S. GelfandHuman Genetic Linkage Analysis; Alejandro A. Sch?fferCombinatorial Methods for Haplotype Inference; Dan Gusfield and Steven Hecht OrzackPHYLOGENETICSAn Overview of Phylogeny Reconstruction; C. Randal Linder and Tandy WarnowConsensus Trees and Supertrees; Oliver EulensteinLarge-Scale Phylogenetic Analysis; Tandy WarnowHigh-Performance Phylogeny Reconstruction; David A. Bader and Mi YanMICROARRAYS AND GENE EXPRESSION ANALYSISMicroarray Data: Annotation, Storage, Retrieval and Communication; Catherine A. Ball and Gavin SherlockComputational Methods for Microarray Design; Hui-Hsien ChouClustering Algorithms for Gene Expression Analysis; Pierre Baldi, G. Wesley Hatfield, and Li M. FuBiclustering Algorithms: A Survey; Amos Tanay, Roded Sharan, and Ron ShamirIdentifying Gene Regulatory Networks from Gene Expression Data; Vladimir FilkovModeling and Analysis of Gene Networks Using Feedback Control Theory; Hana El Samad and Mustafa KhammashCOMPUTATIONAL STRUCTURAL BIOLOGYPredicting Protein Secondary and Supersecondary Structure; Mona SinghProtein Structure Prediction with Lattice Models; William E. Hart and Alantha NewmanProtein Structure Determination via NMR Spectral Data; Guohui Lin, Xin Tu, and Xiang WanGeometric Processing of Reconstructed 3D Maps of Molecular Complexes; Chandrajit Bajaj and Zeyun YuIn Search of Remote Homolog; Dong Xu, Ognen Duzlevski, and Xiu-Feng WanBiomolecular Modeling using Parallel Supercomputers; Laxmi