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Primer of Genome Science 2nd Revised edition [Pehme köide]

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  • Formaat: Paperback / softback, 375 pages, kõrgus x laius: 235x176 mm, 150 illustrations
  • Ilmumisaeg: 01-Jan-2004
  • Kirjastus: Sinauer Associates Inc.,U.S.
  • ISBN-10: 0878932321
  • ISBN-13: 9780878932320
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Primer of Genome Science 2nd Revised editionSuurem pilt
  • Formaat: Paperback / softback, 375 pages, kõrgus x laius: 235x176 mm, 150 illustrations
  • Ilmumisaeg: 01-Jan-2004
  • Kirjastus: Sinauer Associates Inc.,U.S.
  • ISBN-10: 0878932321
  • ISBN-13: 9780878932320
Teised raamatud teemal:
Püsilink: https://www.kriso.ee/db/9780878932320.html
Märksõnad:
This textbook provides an introduction to genome science for senior undergraduate and beginning graduate students. Each of six chapters features several boxes explaining the theory behind bioinformatic methods, along with discussion questions, a summary, and suggestions for further reading. It is assumed that the reader has completed an undergraduate course in genetics. The authors teach functional genomics and bioinformatics at North Carolina State University. Annotation ©2004 Book News, Inc., Portland, OR (booknews.com)

Muu info

GREG GIBSON is Associate Professor in the Department of Genetics at North Carolina State University, USA. His research is in developmental and pharmacological quantitative genetics and genomics, focusing mainly on the fruitfly, Drosophila melanogaster. SPENCER MUSE is Associate Professor in the Department of Statistics, Bioinformatics Research Centre at North Carolina State University, USA. His research is in molecular evolution and bioinformatics.
Preface xi
1 Genome Projects: Organization and Objectives
The Core Aims of Genome Science
1(3)
Mapping Genomes
4(9)
Genetic Maps
4(4)
EXERCISE 1.1 Constructing a genetic map
7(1)
Physical Maps
8(1)
Cytological Maps
8(2)
Comparative Genomics
10(3)
The Human Genome Project
13(12)
Objectives
13(3)
The Content of the Human Genome
16(6)
BOX 1.1 The Ethical, Legal, and Social Implications of the Human Genome Project
18(4)
Internet Resources
22(3)
EXERCISE 1.2 Use the NCBI and Ensembl genome browsers to examine a human disease gene
23(2)
Animal Genome Projects
25(16)
BOX 1.2 GenBank Files
26(3)
Rodent Genome Projects
29(4)
EXERCISE 1.3 Compare the structure of a gene in a mouse and a human
32(1)
Other Vertebrate Biomedical Models
33(1)
Animal Breeding Projects
34(1)
Invertebrate Model Organisms
35(3)
BOX 1.3 Managing and Distributing
Genome Data
38(3)
Plant Genome Projects
41(6)
Arabidopsis Thaliana
41(2)
Grasses and Legumes
43(3)
Other Flowering Plants
46(1)
Microbial Genome Projects
47(12)
The Minimal Genome
47(4)
Sequenced Microbial Genomes
51(2)
EXERCISE 1.4 Compare two microbial genomes using the CMR
52(1)
Environmental Sequencing
53(2)
Yeast
55(2)
EXERCISE 1.5 Examining a gene in the Saccharomyces Genome Database
56(1)
Parasite Genomics
57(2)
Summary
59(1)
Discussion Questions
60(1)
Literature Cited
60(5)
2 Genome Sequencing and Annotation
Automated DNA Sequencing
65(16)
The Principle of Sanger Sequencing
65(1)
High-Throughput Sequencing
66(2)
Reading Sequence Traces
68(4)
EXERCISE 2.1 Reading a sequence trace
71(1)
Contig Assembly
72(7)
BOX 2.1 Pairwise Sequence Alignment
74(4)
EXERCISE 2.2 Computing an optimal sequence alignment
78(1)
Emerging Sequencing Methods
79(2)
Genome Sequencing
81(12)
Hierarchical Sequencing
82(4)
Shotgun Sequencing
86(6)
BOX 2.2 Searching Sequence Databases Using BLAST
88(4)
Sequence Verification
92(1)
Genome Annotation
93(40)
EST Sequencing
93(3)
Ab Initio Gene Discovery
96(37)
3 SNPs and Variation
The Nature of Single Nucleotide Polymorphisms
133(14)
Classification of SNPs
133(3)
Distribution of SNPs
136(2)
Linkage Disequilibrium and Haplotype Maps
138(9)
BOX 3.1 Disequilibrium between Alleles at Two Loci
140(3)
EXERCISE 3.1 Quantifying heterozygosity and LD
143(4)
Applications of SNP Technology
147
Population Genetics
147(6)
BOX 3.2 The Coalescent
150(3)
Recombination Mapping
153(3)
EXERCISE 3.2 Inferring haplotype structure
154(2)
QTL Mapping
156(3)
Linkage Disequilibrium Mapping
159
BOX 3.3 Case-Control Association Studies
164
BOX 2.3 Hidden Markov Models and Gene Finding
97(4)
Regulatory Sequences
101(1)
Non-Protein Coding Genes
102(3)
Structural Features of Genome Sequences
105(5)
Functional Annotation and Gene Family Clusters
110(16)
EXERCISE 2.3 Perform a BLAST search
111(1)
Clustering of Genes by Sequence Similarity
112(2)
Clusters of Orthologous Genes
114(1)
Phylogenetic Classification of Genes
115(7)
BOX 2.4 Phylogenetics
116(4)
EXERCISE 2.4 A simple phylogenetic analysis
120(2)
Gene Ontology
122(50)
BOX 2.5 Gene Ontologies
124(2)
Summary
126(2)
Discussion Questions
128(1)
Web Site Exercises
128(1)
Literature Cited
129(43)
BOX 3.4 Family-Based Association Tests
168(3)
EXERCISE 3.3 Perform a case-control association test
171(1)
SNP Discovery
172(4)
Resequencing
172(2)
Sequence-Free Polymorphism Detection
174(2)
SNP Genotyping
176(12)
Low-Technology Methods
178(1)
Minisequencing Methods
178(6)
EXERCISE 3.4 Designing a genotyping assay for a double polymorphism
184(1)
Homogeneous Fluorogenic Dye-Based Methods
184(4)
Haplotype Phasing Methods
188(1)
Summary
188(2)
Discussion Questions
190(1)
Web Site Exercises
190(1)
Literature Cited
190(5)
4 Gene Expression and the Transcriptome
Parallel Analysis of Gene Expression. Microarrays
195(37)
Applications of Microarray Technology
196(2)
Experimental Design
198(4)
EXERCISE 4.1 Design a microarray experiment
200(2)
Microarray Technologies
202(9)
Statistical Analysis of cDNA Microarray Data
211(13)
BOX 4.1 Microarray Image Processing
214(2)
EXERCISE 4.2 Calculate which genes are differentially expressed
216(4)
BOX 4.2 Basic Statistical Methods
220(3)
EXERCISE 4.3 Evaluate the significance of the following gene expression differences
223(1)
Microarray Data Mining
224(6)
BOX 4.3 Clustering Methods
226(3)
EXERCISE 4.4 Perform a cluster analysis on gene expression profiles
229(1)
ChIP Chips and Gene Regulation
230(2)
SAGE and Microbeads
232(7)
Serial Analysis of Gene Expression
232(7)
BOX 4.4 Motif Detection in Promoter Sequences
234(5)
Microbead-Based Expression Profiling
239(1)
Single-Gene Analyses
239(3)
Northern Blots
239(2)
Quantitative PCR
241(1)
Properties of Transcriptomes
242(13)
Microbial Transcriptomics
243(4)
Cancer and Clinical Applications
247(3)
Development, Physiology, and Behavior
250(3)
Evolutionary and Ecological Functional Genomics
253(2)
Gene Expression Databases
255(3)
Summary
258(1)
Discussion Questions
259(1)
Web Site Exercises
260(1)
A Literature Cited
260(5)
5 Proteomics and Functional Genomics
Functional Proteomics
265(24)
Protein Annotation
265(8)
EXERCISE 5.1 Structural annotation of a protein
268(2)
BOX 5.1 Hidden Markov Models in Domain Profiling
270(3)
Protein Separation and 2D-PAGE
273(4)
Mass Spectrometry and Protein Identification
277(6)
EXERCISE 5.2 Identification of a protein on the basis of a MS profile
280(3)
Protein Microarrays
283(2)
Protein Interaction Maps
285(4)
EXERCISE 5.3 Formulating a network of protein interactions
287(2)
Structural Proteomics
289(11)
Objectives of Structural Proteomics
289(5)
BOX 5.2 Biological Networks In Genome Science
290(4)
Protein Structure Determination
294(3)
Protein Structure Prediction and Threading
297(3)
Functional Genomics
300(22)
Saturation Forward Genetics
301(5)
High-Throughput Reverse Genetics
306(8)
BOX 5.3 Transgenic Animals and Plants
312(2)
Fine-Structure Genetics
314(7)
EXERCISE 5.4 Designing a genetic screen
316(5)
Genetic Fingerprinting
321(1)
Summary
322(3)
Discussion Questions
325(1)
Web Site Exercises
325(1)
Literature Cited
325(8)
6 Integrative Genomics
Metabolomics
333(6)
Analysis of Cellular Constituents
333(4)
Metabolic and Biochemical Databases
337(2)
In Silico Genomics
339(9)
Metabolic Control Analysis
339(4)
Systems-Level Modeling of Gene Networks
343(5)
Summary
348(1)
Discussion Questions
348(1)
Literature Cited
349(2)
Glossary 351(12)
List of Abbreviations 363(2)
Index 365