Introduction to genomics:
Gespeichert in:
| 1. Verfasser: | |
|---|---|
| Format: | Buch |
| Sprache: | English |
| Veröffentlicht: |
Oxford [u.a.]
Oxford University Press
2012
|
| Ausgabe: | second edition |
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XXII, 397 Seiten Illustrationen, Diagramme |
| ISBN: | 9780199564354 |
Internformat
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Datensatz im Suchindex
| _version_ | 1804148921779355648 |
|---|---|
| adam_text | IMAGE 1
CONTENTS
PREFACE TO THE FIRST EDITION VII
PREFACE TO THE SECOND EDITION IX
PLAN OF THE SECOND EDITION X
NEW TO THIS EDITION XII
RECOMMENDED READING XIII
INTRODUCTION TO GENOMICS ON THE WEB XIII
ACKNOWLEDGEMENTS XIII
SECTIONS MARKED WITH * ARE CLINICALLY RELATED
INTRODUCTION TO GENOMICS 3
THE HUMAN GENOME 4
PHENOTYPE = GENOTYPE + ENVIRONMENT + LIFE HISTORY + EPIGENETICS 4
CONTENTS OF THE HUMAN GENOME 6
GENES THAT ENCODE THE PROTEOME 8
THE LEAP FROM THE ONE-DIMENSIONAL WORLD OF SEQUENCES TO THE
THREE-DIMENSIONAL WORLD WE INHABIT 9
VARIETIES OF GENOME ORGANIZATION 10
CHROMOSOMES, ORGANELLES, AND PLASMIDS 10
GENES 13
DYNAMIC COMPONENTS OF GENOMES 15
GENOME SEQUENCING PROJECTS 17
GENOME PROJECTS AND THE DEVELOPMENT OF OUR CURRENT INFORMATION LIBRARY
18
VARIATIONS WITHIN AND BETWEEN POPULATIONS 20
CANCER GENOME SEQUENCING* 20
HUMAN GENOME SEQUENCING 20
THE HUMAN GENOME AND MEDICINE* 21
PREVENTION OF DISEASE 21
DETECTION AND PRECISE DIAGNOSIS 22
DISCOVERY AND IMPLEMENTATION OF EFFECTIVE TREATMENT 22
HEALTH CARE DELIVERY 23
THE EVOLUTION AND DEVELOPMENT OF DATABASES 24
DATABANK EVO-DEVO 25
GENOME BROWSERS 25
PROTEIN EVOLUTION: DIVERGENCE OF SEQUENCES AND STRUCTURES WITHIN AND
BETWEEN SPECIES 30
DIFFERENT GLOBINS DIVERGED FROM A COMMON ANCESTOR 30
ETHICAL, LEGAL, AND SOCIAL ISSUES (*, PARTLY) 32
DATABASES CONTAINING HUMAN DNA SEQUENCE INFORMATION 32
RECOMMENDED READING 35
EXERCISES, PROBLEMS, AND WEBLEMS 36
IMAGE 2
CONTENTS
2 GENOMES ARE THE HUB OF BIOLOGY 41
INDIVIDUALS, POPULATIONS, THE BIOSPHERE: PAST, PRESENT, AND FUTURE 42
THE CENTRAL DOGMA, AND PERIPHERAL ONES 43
EXPRESSION PATTERNS 43
REGULATION OF GENE EXPRESSION 44
PROTEOMICS 48
GENOMICS AND DEVELOPMENTAL BIOLOGY 48
GENES AND MINDS: NEUROGENOMICS 50
POPULATIONS 52
SINGLE-NUCLEOTIDE POLYMORPHISMS (SNPS) AND HAPLOTYPES 52 A CLINICALLY
IMPORTANT HAPLOTYPE: THE MAJOR HISTOCOMPATIBILITY COMPLEX* 55 MUTATIONS
AND DISEASE* 57
GENETIC DISEASES - SOME EXAMPLES OF THEIR CAUSES AND TREATMENT* 59
HEMOGLOBINOPATHIES - MOLECULAR DISEASES CAUSED BY ABNORMAL HAEMOGLOBINS
59
PHENYLKETONURIA 60
ALZHEIMER S DISEASE 61
SNPS AND CANCER 62
SPECIES 66
THE BIOSPHERE 67
EXTINCTIONS 67
RECOMMENDED READING 70
EXERCISES, PROBLEMS, AND WEBLEMS 71
3 MAPPING, SEQUENCING, ANNOTATION, AND DATABASES 79
CLASSICAL GENETICS AS BACKGROUND 80
WHAT IS A GENE? 81
MAPS AND TOUR GUIDES 81
GENETIC MAPS 82
LINKAGE 82
LINKAGE DISEQUILIBRIUM 83
CHROMOSOME BANDING PATTERN MAPS 84
HIGH-RESOLUTION MAPS, BASED DIRECTLY ON DNA SEQUENCES 88
RESTRICTION MAPS 89
DISCOVERY OF THE STRUCTURE OF DNA 90
DNA SEQUENCING 93
FREDERICK SANGER AND THE DEVELOPMENT OF DNA SEQUENCING 94 THE
MAXAM-GILBERT CHEMICAL CLEAVAGE METHOD 97
AUTOMATED DNA SEQUENCING 97
ORGANIZING A LARGE-SCALE SEQUENCING PROJECT 98
BRING ON THE CLONES: HIERARCHICAL - OR BAC-TO-BAC - GENOME SEQUENCING
98 WHOLE-GENOME SHOTGUN SEQUENCING 99
HIGH-THROUGHPUT SEQUENCING 100
LIFE IN THE FAST LANES 103
DATABANKS IN MOLECULAR BIOLOGY 104
NUCLEIC ACID SEQUENCE DATABASES 106
IMAGE 3
CONTENTS
PROTEIN SEQUENCE DATABASES 106
DATABASES OF GENETIC DISEASES - OMIM AND OMIA* 106
DATABASES OF STRUCTURES 107
CLASSIFICATIONS OF PROTEIN STRUCTURES 107
SPECIALIZED OR BOUTIQUE , DATABASES 107
EXPRESSION AND PROTEOMICS DATABASES 107
DATABASES OF METABOLIC PATHWAYS 109
BIBLIOGRAPHIC DATABASES 109
SURVEYS OF MOLECULAR BIOLOGY DATABASES AND SERVERS 109
RECOMMENDED READING 110
EXERCISES, PROBLEMS, AND WEBLEMS 110
COMPARATIVE GENOMICS 115
INTRODUCTION 116
UNITY AND DIVERSITY OF LIFE 116
TAXONOMY BASED ON SEQUENCES 117
SIZES AND ORGANIZATION OF GENOMES 121
GENOME SIZES 121
VIRAL GENOMES 124
RECOMBINANT VIRUSES 124
INFLUENZA: A PAST AND CURRENT THREAT* 126
GENOME ORGANIZATION IN PROKARYOTES 129
REPLICATION AND TRANSCRIPTION 129
GENE TRANSFER 130
GENOME ORGANIZATION IN EUKARYOTES 132
PHOTOSYNTHETIC SEA SLUGS: ENDOSYMBIOSIS OF CHLOROPLASTS 132
HOW GENOMES DIFFER 133
VARIATION AT THE LEVEL OF INDIVIDUAL NUCLEOTIDES 133
DUPLICATIONS 134
COMPARISONS AT THE CHROMOSOME LEVEL: SYNTENY 143
WHAT MAKES US HUMAN? 143
COMPARATIVE GENOMICS 143
COMBINING THE APPROACHES: THE FOXP2 GENE 144
GENOMES OF CHIMPANZEES AND HUMANS 144
GENOMES OF MICE AND RATS 145
MODEL ORGANISMS FOR STUDY OF HUMAN DISEASES* 146
THE GENOME OF CAENORHABDITIS ELEGANS 147
THE GENOME OF DROSOPHILA MELANOGASTER 147
HOMOLOGOUS GENES IN HUMANS, WORMS, AND FLIES 148
THE ENCODE PROJECT 151
THE MODENCODE PROJECT 153
RECOMMENDED READING 154
EXERCISES, PROBLEMS, AND WEBLEMS 155
IMAGE 4
CONTENTS
5 EVOLUTION AND GENOMIC CHANGE 161
EVOLUTION IS EXPLORATION 162
BIOLOGICAL SYSTEMATICS 164
BIOLOGICAL NOMENCLATURE 164
MEASUREMENT OF BIOLOGICAL SIMILARITIES AND DIFFERENCES 165
HOMOLOGUES AND FAMILIES 166
PATTERN MATCHING - THE BASIC TOOL OF BIOINFORMATICS 167
SEQUENCE ALIGNMENT 167
DEFINING THE OPTIMUM ALIGNMENT 171
APPROXIMATE METHODS FOR QUICK SCREENING OF DATABASES 173
PATTERN MATCHING IN THREE-DIMENSIONAL STRUCTURES 176
EVOLUTION OF PROTEIN SEQUENCES, STRUCTURES, AND FUNCTIONS 176
THE EFFECTS OF SINGLE-SITE MUTATIONS 177
EVOLUTION OF PROTEIN STRUCTURE AND FUNCTION 178
PHYLOGENY 181
PHYLOGENETIC TREES 183
CLUSTERING METHODS 184
CLADISTIC METHODS 185
THE PROBLEM OF VARYING RATES OF EVOLUTION 185
BAYESIAN METHODS 186
SHORT-CIRCUITING EVOLUTION: GENETIC ENGINEERING 186
RECOMMENDED READING 187
EXERCISES, PROBLEMS, AND WEBLEMS 188
6 GENOMES OF PROKARYOTES 191
EVOLUTION AND PHYLOGENETIC RELATIONSHIPS IN PROKARYOTES 192
MAJOR TYPES OF PROKARYOTES 192
DO WE KNOW THE ROOT OF THE TREE OF LIFE? 194
ARCHAEA 195
THE GENOME OF METHANOCOCCUS JANNASCHII 197
LIFE AT EXTREME TEMPERATURES 197
COMPARATIVE GENOMICS OF HYPERTHERMOPHILIC ARCHAEA: THERMOCOCCUS
KODAKARENSIS AND PYROCOCCI 201
BACTERIA 204
GENOMES OF PATHOGENIC BACTERIA* 204
GENOMICS AND THE DEVELOPMENT OF VACCINES* 206
METAGENOMICS: THE COLLECTION OF GENOMES IN A COHERENT ENVIRONMENTAL
SAMPLE 208
MARINE CYANOBACTERIA - AN IN-DEPTH STUDY 208
RECOMMENDED READING 212
EXERCISES, PROBLEMS, AND WEBLEMS 212
IMAGE 5
CONTENTS
7 GENOMES OF EUKARYOTES 215
THE ORIGIN AND EVOLUTION OF EUKARYOTES 216
EVOLUTION AND PHYLOGENETIC RELATIONSHIPS IN EUKARYOTES 216
THE YEAST GENOME 216
THE EVOLUTION OF PLANTS 218
THE GENOME OF THE SEA SQUIRT (CIONA INTESTINALIS) 220
THE GENOME OF THE PUFFERFISH {JETRAODON NIGROVIRIDIS) 221
THE CHICKEN GENOME 224
THE PLATYPUS GENOME (ORNITHORHYNCHUS ANATINUS) TIB
THE DOG GENOME 226
PALAEOSEQUENCING - ANCIENT DNA 229
RECOVERY OF DNA FROM ANCIENT SAMPLES 229
DNA FROM EXTINCT BIRDS 230
THE MOAS OF NEW ZEALAND 230
THE DODO AND THE SOLITAIRE 232
HIGH-THROUGHPUT SEQUENCING OF MAMMOTH DNA 232
THE MAMMOTH NUCLEAR GENOME 233
THE PHYLOGENY OF ELEPHANTS 233
RECOMMENDED READING 234
EXERCISES, PROBLEMS, AND WEBLEMS 235
8 GENOMICS AND HUMAN BIOLOGY 237
GENOMICS IN PERSONAL IDENTIFICATION 238
MITOCHONDRIAL DNA 239
GENDER IDENTIFICATION 240
PHYSICAL CHARACTERISTICS 241
THE DOMESTICATION OF CROPS 241
MAIZE (LEA MAYS) 243
RICE (ORYZA SATIVA) 245
CHOCOLATE (THEOBROMA CACAO) 245
THE T. CACAO GENOME 247
GENOMICS IN ANTHROPOLOGY 250
THE NEANDERTHAL GENOME 250
ANCIENT POPULATIONS AND MIGRATIONS 251
GENOMICS AND LANGUAGE 258
RECOMMENDED READING 260
EXERCISES, PROBLEMS, AND WEBLEMS 261
9 MICROARRAYS AND TRANSCRIPTOMICS 265
INTRODUCTION 266
APPLICATIONS OF DNA MICROARRAYS 268
ANALYSIS OF MICROARRAY DATA 269
IMAGE 6
CONTENTS
EXPRESSION PATTERNS IN DIFFERENT PHYSIOLOGICAL STATES 272
THE DIAUXIC SHIFT IN SACCHAROMYCES CEREVISIAE 272
SLEEP IN RATS AND FRUIT FLIES 274
EXPRESSION PATTERN CHANGES IN DEVELOPMENT 276
VARIATION OF EXPRESSION PATTERNS DURING THE LIFE CYCLE OF DROSOPHILA
MELANOGASTER 276
FLOWER FORMATION IN ROSES 278
EXPRESSION PATTERNS IN LEARNING AND MEMORY: LONG-TERM POTENTIATION 282
CONSERVED CLUSTERS OF CO-EXPRESSING GENES 284
EVOLUTIONARY CHANGES IN EXPRESSION PATTERNS 285
APPLICATIONS OF MICROARRAYS IN MEDICINE* 287
DEVELOPMENT OF ANTIBIOTIC RESISTANCE IN BACTERIA 287
CHILDHOOD LEUKAEMIAS 290
WHOLE TRANSCRIPTOME SHOTGUN SEQUENCING: RNA-SEQ 292
RECOMMENDED READING 293
EXERCISES, PROBLEMS, AND WEBLEMS 293
10 PROTEOMICS 297
INTRODUCTION 298
PROTEIN NATURE AND TYPES 298
PROTEIN STRUCTURE 299
THE CHEMICAL STRUCTURE OF PROTEINS 299
CONFORMATION OF THE POLYPEPTIDE CHAIN 300
PROTEIN FOLDING PATTERNS 301
POST-TRANSLATIONAL MODIFICATIONS 304
WHY IS THERE A COMMON GENETIC CODE WITH 20 CANONICAL AMINO ACIDS? 306
SEPARATION AND ANALYSIS OF PROTEINS 307
POLYACRYLAMIDE GEL ELECTROPHORESIS (PAGE) 307
TWO-DIMENSIONAL POLYACRYLAMIDE GEL ELECTROPHORESIS (2D-PAGE) 307 MASS
SPECTROMETRY 308
CLASSIFICATION OF PROTEIN STRUCTURES 310
SCOP 312
CHANGES IN FOLDING PATTERNS IN PROTEIN EVOLUTION 313
MANY PROTEINS CHANGE CONFORMATION AS PART OF THE MECHANISM OF THEIR
FUNCTION 314
CONFORMATIONAL CHANGE DURING ENZYMATIC CATALYSIS 314
MOTOR PROTEINS 316
ALLOSTERIC REGULATION OF PROTEIN FUNCTION 318
CONFORMATIONAL STATES OF SERINE PROTEASE INHIBITORS (SERPINS) 320
PROTEIN STRUCTURE PREDICTION AND MODELLING 322
HOMOLOGY MODELLING 323
AVAILABLE PROTOCOLS FOR PROTEIN STRUCTURE PREDICTION 327
STRUCTURAL GENOMICS 328
IMAGE 7
CONTENTS
DIRECTED EVOLUTION AND PROTEIN DESIGN 328
DIRECTED EVOLUTION OF SUBTILISIN E 329
ENZYME DESIGN 330
PROTEIN COMPLEXES AND AGGREGATES 330
PROTEIN AGGREGATION DISEASES* 331
PROPERTIES OF PROTEIN-PROTEIN COMPLEXES 332
MULTISUBUNIT PROTEINS 335
RECOMMENDED READING 336
EXERCISES, PROBLEMS, AND WEBLEMS 336
11 SYSTEMS BIOLOGY 341
INTRODUCTION TO SYSTEMS BIOLOGY 342
TWO PARALLEL NETWORKS: PHYSICAL AND LOGICAL 342
STATICS AND DYNAMICS OF NETWORKS 343
PICTURES OF NETWORKS AS GRAPHS 344
TREES 345
SOURCES OF IDEAS FOR SYSTEMS BIOLOGY 346
COMPLEXITY OF SEQUENCES 346
SHANNON S DEFINITION OF ENTROPY 347
RANDOMNESS OF SEQUENCES 348
STATIC AND DYNAMIC COMPLEXITY 349
COMPUTATIONAL COMPLEXITY 350
THE METABOLOME 351
CLASSIFICATION AND ASSIGNMENT OF PROTEIN FUNCTION 351
METABOLIC NETWORKS 354
DATABASES OF METABOLIC PATHWAYS 354
METHIONINE SYNTHESIS IN ESCHERICHIA COLI 355
THE KYOTO ENCYCLOPEDIA OF GENES AND GENOMES (KEGG) 356 EVOLUTION AND
PHYLOGENY OF METABOLIC PATHWAYS 357
CARBOHYDRATE METABOLISM IN ARCHAEA 358
RECONSTRUCTION OF METABOLIC NETWORKS 360
REGULATORY NETWORKS 361
SIGNAL TRANSDUCTION AND TRANSCRIPTIONAL CONTROL 362
STRUCTURES OF REGULATORY NETWORKS 362
DYNAMICS, STABILITY, AND ROBUSTNESS 363
ROBUSTNESS THROUGH REDUNDANCY 363
DYNAMIC MODELLING 365
PROTEIN INTERACTION NETWORKS 366
STRUCTURAL BIOLOGY OF REGULATORY NETWORKS 370
PROTEIN-DNA INTERACTIONS 373
STRUCTURAL THEMES IN PROTEIN-DNA BINDING AND SEQUENCE RECOGNITION 373
AN ALBUM OF TRANSCRIPTION REGULATORS 374
IMAGE 8
CONTENTS
GENE REGULATION 376
THE TRANSCRIPTIONAL REGULATORY NETWORK OF ESCHERICHIA COLI 376
REGULATION OF THE LACTOSE OPERON IN E. COLI 380
THE GENETIC REGULATORY NETWORK OF SACCHAROMYCES CEREVISIAE 382
ADAPTABILITY OF THE YEAST REGULATORY NETWORK 383
RECOMMENDED READING 384
EXERCISES, PROBLEMS, AND WEBLEMS 385
EPILOGUE 389
INDEX 390
|
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| ctrlnum | (OCoLC)785848265 (DE-599)BVBBV039950872 |
| dewey-full | 572.86 |
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| dewey-ones | 572 - Biochemistry |
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| discipline | Biologie |
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| owner_facet | DE-11 DE-20 DE-355 DE-BY-UBR DE-19 DE-BY-UBM DE-29T |
| physical | XXII, 397 Seiten Illustrationen, Diagramme |
| publishDate | 2012 |
| publishDateSearch | 2012 |
| publishDateSort | 2012 |
| publisher | Oxford University Press |
| record_format | marc |
| spelling | Lesk, Arthur M. Verfasser aut Introduction to genomics Arthur M. Lesk second edition Oxford [u.a.] Oxford University Press 2012 XXII, 397 Seiten Illustrationen, Diagramme txt rdacontent n rdamedia nc rdacarrier Genómica Génomique Genomics Genomik (DE-588)4776397-8 gnd rswk-swf Genanalyse (DE-588)4200230-8 gnd rswk-swf Evolution (DE-588)4071050-6 gnd rswk-swf 1\p (DE-588)4123623-3 Lehrbuch gnd-content Genomik (DE-588)4776397-8 s DE-604 Evolution (DE-588)4071050-6 s Genanalyse (DE-588)4200230-8 s SWB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024808800&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis 1\p cgwrk 20201028 DE-101 https://d-nb.info/provenance/plan#cgwrk |
| spellingShingle | Lesk, Arthur M. Introduction to genomics Genómica Génomique Genomics Genomik (DE-588)4776397-8 gnd Genanalyse (DE-588)4200230-8 gnd Evolution (DE-588)4071050-6 gnd |
| subject_GND | (DE-588)4776397-8 (DE-588)4200230-8 (DE-588)4071050-6 (DE-588)4123623-3 |
| title | Introduction to genomics |
| title_auth | Introduction to genomics |
| title_exact_search | Introduction to genomics |
| title_full | Introduction to genomics Arthur M. Lesk |
| title_fullStr | Introduction to genomics Arthur M. Lesk |
| title_full_unstemmed | Introduction to genomics Arthur M. Lesk |
| title_short | Introduction to genomics |
| title_sort | introduction to genomics |
| topic | Genómica Génomique Genomics Genomik (DE-588)4776397-8 gnd Genanalyse (DE-588)4200230-8 gnd Evolution (DE-588)4071050-6 gnd |
| topic_facet | Genómica Génomique Genomics Genomik Genanalyse Evolution Lehrbuch |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024808800&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT leskarthurm introductiontogenomics |