LEADER 05270nam 22006374a 450 001 9910830606403321 005 20230617031205.0 010 $a1-280-25276-6 010 $a9786610252763 010 $a0-470-35602-2 010 $a0-471-32641-0 010 $a0-471-72272-3 035 $a(CKB)1000000000019018 035 $a(EBL)226552 035 $a(OCoLC)58901824 035 $a(SSID)ssj0000167275 035 $a(PQKBManifestationID)11163655 035 $a(PQKBTitleCode)TC0000167275 035 $a(PQKBWorkID)10169422 035 $a(PQKB)10156312 035 $a(MiAaPQ)EBC226552 035 $a(EXLCZ)991000000000019018 100 $a20020715d2003 uy 0 101 0 $aeng 135 $aur|n|---||||| 181 $ctxt 182 $cc 183 $acr 200 10$aHandbook of comparative genomics$b[electronic resource] $eprinciples and methodology /$fCecilia Saccone, Graziano Pesole 210 $aNew York $cWiley-Liss$dc2003 215 $a1 online resource (444 p.) 300 $aDescription based upon print version of record. 311 $a0-471-39128-X 320 $aIncludes bibliographical references (p. 377-422) and index. 327 $aHANDBOOK OF COMPARATIVE GENOMICS Principles and Methodology; CONTENTS; PREFACE; I GENOME FEATURES; 1 PROKARYOTES; 1.1 Introduction; 1.2 Morphology and Classification; 1.3 Genome Shape and Size; 1.4 Gene Content and Organization; 1.5 Base Composition; 1.6 Codon Use; 1.7 Replication and Expression; 2 EUKARYOTES; 2.1 Introduction; 2.2 Classification and Time Scale; 2.3 Genome Shape and Size; 2.4 Base Composition; 2.5 Replication, Repair, and Recombination; 2.6 Gene Expression; 2.6.1 Transcription and Posttranscriptional Regulation; 2.6.2 Genetic Code and Codon Use 327 $a2.6.3 Translation and Posttranslation Modifications2.7 Completely Sequenced Eukaryotic Genomes; 2.7.1 Saccharomyces cerevisiae Genome; 2.7.2 Schizosaccharomyces pombe Genome; 2.7.3 Caenorhabditis elegans Genome; 2.7.4 Drosophila melanogaster Genome; 2.7.5 Arabidopsis thaliana Genome; 2.7.6 Oryza sativa Genome; 2.7.7 Homo sapiens Genome; 3 ORGANELLES; 3.1 Mitochondria; 3.1.1 General Structure and Function; 3.1.2 DNA and Genetic System; 3.1.3 Genome Features; 3.2 Chloroplasts and Other Plastids; II METHODOLOGIES; 4 MOLECULAR BIOLOGY TECHNIQUES FOR GENOMICS; 4.1 Genome DNA Sequencing 327 $a4.1.1 DNA-Sequencing Techniques4.1.2 The Human Genome Project; 4.2 Analysis of the Transcriptome; 4.2.1 Analysis of Gene Expression; 4.2.2 Expressed Sequence Tags; 4.2.3 Serial Analysis of Gene Expression; 4.2.4 Differential Display; 4.2.5 Representational Difference Analysis; 4.2.6 DNA Microarrays; 4.3 Analysis of the Proteome; 4.3.1 Two-Dimensional Gel Electrophoresis; 4.3.2 Protein Identification; 4.3.3 Study of Protein-DNA and Protein-Protein Interactions; 4.3.4 Proteome Analysis Using Biochips; 5 BIOLOGICAL DATABASES IN THE GENOME ERA; 5.1 Introduction 327 $a5.2 Primary and Specialized Databases5.3 Database Structures; 5.4 Linked Databases and Database Interoperability; 5.5 Database Annotation; 5.6 Retrieval Systems; 5.6.1 SRS; 5.6.2 Entrez; 5.6.3 Other Retrieval Systems; 5.7 Nucleotide Databases; 5.8 Protein Databases; 5.9 Other Protein Databases; 5.10 Genomic Databases and Resources; 5.11 Gene Databases and Resources; 5.12 Transcriptome Databases; 5.13 Metabolism Databases; 5.14 Mutation Databases; 5.15 Mitochondrial Databases and Resources; 6 COMPUTATIONAL METHODS FOR THE ANALYSIS OF GENOME SEQUENCE DATA; 6.1 Introduction; 6.2 Dot-Plot Matrix 327 $a6.3 Sequence Pairwise Alignment6.3.1 Needleman-Wunsch Global Alignment Algorithm; 6.3.2 Smith-Waterman Algorithm for the Identification of Common Molecular Subsequences; 6.3.3 Alignment of cDNA and Genomic DNA Sequences; 6.3.4 Genome Alignment; 6.3.5 Cleanup of Sequence Databases from Redundancy; 6.3.6 Measure of the Similarity Degree between Homologous Sequences; 6.4 Database Searching; 6.4.1 FASTA; 6.4.2 BLAST; 6.4.3 BLAST and FASTA Family of Programs; 6.4.4 Filtering Matches to Unwanted Sequences; 6.4.5 Filtering Matches to Repetitive Sequences 327 $a6.4.6 Statistical Significance of Alignment Scores 330 $aThis comprehensive reference covers the comparative methodology involved in studying molecular evolution. Providing a practical introduction to the role of bioinformatics in comparative genomics, this publication further discusses the basic technology used in genome sequencing projects and provides an overview of genome storage databases currently in use. This timely and cutting-edge text also:Reviews the basic principles of genomics and gene expression analysis Discusses analytic methods in proteomics and transcriptomics Includes a comprehensive list of Web resource 606 $aGenomics$vHandbooks, manuals, etc 606 $aEvolutionary genetics$vHandbooks, manuals, etc 615 0$aGenomics 615 0$aEvolutionary genetics 676 $a572.8 676 $a572.86 700 $aSaccone$b C$0623770 701 $aPesole$b Graziano$0286145 801 0$bMiAaPQ 801 1$bMiAaPQ 801 2$bMiAaPQ 906 $aBOOK 912 $a9910830606403321 996 $aHandbook of comparative genomics$91462206 997 $aUNINA