A beginner's guide to microarrays:
Gespeichert in:
| Weitere Verfasser: | |
|---|---|
| Format: | Buch |
| Sprache: | English |
| Veröffentlicht: |
Boston, Mass. [u.a.]
Kluwer
2003
|
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XVI, 347 S. graph. Darst. |
| ISBN: | 1402074727 |
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| 245 | 1 | 0 | |a A beginner's guide to microarrays |c ed. by Eric M. Blalock |
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Datensatz im Suchindex
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| adam_text | A BEGINNER S GUIDE TO
MICROARRAYS
edited by
Eric M Blalock
University of Kentucky Medical Center, U S A
KLUWER ACADEMIC PUBLISHERS
Boston / New York / Dordrecht / London
Contents
Preface xv
Chapter 1 1
SLIDE COATING AND DNA IMMOBILIZATION
CHEMISTRIES 1
Kathryn Aboytes, Jason Humphreys, Sonya Reis and Brian Ward
INTRODUCTION 1
GLASS PROPERTIES 1
GLASS CLEANING 3
SLIDE COATING CHEMISTRIES 9
DNAMMOBILIZATION CHEMISTRIES 11
SURFACE ANALYSIS METHODS 32
SUMMARY 36
REFERENCES 36
Chapter 2 43
DIAGNOSTIC OLIGONUCLEOTIDE MICROARRAYS
FOR MICROBIOLOGY 43
Levente Bodrossy, Ph D
INTRODUCTION 44
SCHEME OF THE EXPERIMENTAL APPROACH 46
SOURCES OF VARIATION 46
ESTABLISHMENT OF A SEQUENCE DATABASE 47
OLIGO LENGTH AND MELTING TEMPERATURE (TM);
DESIGNING OLIGO SETS TUNED TO WORK TOGETHER 52
OLIGO SET DESIGN 53
CHOICE OF OLIGO/SURFACE BINDING CHEMISTRY 63
ARRAYPRINTING 65
TARGET PREPARATION 66
HYBRIDISATION 73
SCANNING 74
DATAANALYSIS 77
APPLICATIONS IN MICROBIALIDENTIFICATION 78
ACKNOWLEDGEMENTS 82
LINKS RELATED TO DIAGNOSTIC MICROBIAL
MICROARRAYS 82
REFERENCE LIST 84
Chapter 3 93
PRINTING TECHNOLOGIES AND MICROARRAY
MANUFACTURING TECHNIQUES:
MAKINGTHE PERFECT MICROARRAY 93
ToddMartinsky
INTRODUCTION 93
MICROARRAY MANUFACTURING 94
COMPARING PRINTING TECHNOLOGIES 108
CONCLUSIONS 120
ACKNOWLEDGMENTS 121
REFERENCE LIST 121
Chapter 4 123
ARRAYS FOR THE MASSES - SETTING UP A
MICROARRAY CORE FACILITY 123
Robert P Searles, Ph D
PREFACE 123
INTRODUCTION 124
HEDCO/OREGON CANCER INSTITUTE SPOTTED
MICROARRAY CORE AT OHSU 126
CORE SET-UP 128
ARRAYPRESfTING 129
THEPRINTER 130
SLIDES 133
AMPLIFICATION 135
PRINTING THE ARRAY 136
HYBRIDIZATION 139
SCANNER 142
OTHER EQUIPMENT 145
CONCLUSION 147
REFERENCES 148
x
Chapter 5 1S1
MICROARRAYDATANORMALIZATION:
THE ART AND SCIENCE OF OVERCOMING TECHNICAL
VARIANCE TO MAXIMIZE THE DETECTION OF
BIOLOGIC VARIANCE 151
Maureen A Sartor, M S a, Mario Medvedovic, Ph D
Bruce J Aronow, PhD
NORMALIZATION: CORRECTING FOR TECHNICAL
VARIANCE IN ORDER TO STUDY BIOLOGICAL
VARIATION 151
SINGLE CHANNEL DATA NORMALIZATIONS 156
NORMALIZATIONS OF TWO-CHANNEL DATA 161
THE ROLE OF EXPERIMENTAL DESIGN IN THE
REMOVAL OF TECHNICAL VARIANCE 167
GENE-SPECIFIC NORMALIZATIONS AND CLUSTERING 173
REFERENCES 176
Chapter 6 179
EXPERIMENTALDESIGNANDDATAANALYSIS 179
EricBlalock
INTRODUCTION 179
MEASURING RNA 180
FOLD CHANGE SIGNIFICANCE 182
VARIANCE 187
EXPER1MENTALDESIGN 189
VARIANCE AND FOLD-CHANGE 195
AFFYMETRDCDATA 201
WORKING WITH MORE THAN TWO GROUPS 215
FUNCTIONAL GROUPING 226
USING EXCEL 235
ACKNOWLEDGEMENTS 236
REFERENCES 237
XI
Chapter 7 243
MICROARRAY EXPERIMENT DESIGN
AND STATISTICAL ANALYSIS 243
Xuejun Peng and Arnold J Stromberg
INTRODUCTION 243
DESIGNING AMICROARRAY EXPERIMENT 245
GENERAL PROCEDURES FOR STATISTICAL ANALYSIS
OF MICROARRAY DATA 248
MULTIPLE HYPOTHESIS TESTING IN MICROARRAY
EXPERIMENTS 249
METHODS BASED ON P VALUE ADJUSTMENT 252
ANALYSIS OF VARIANCE 263
SUMMARY OF THE CHAPTER 272
SOME USEFUL ONLINE SOURCES FOR
MICROARRAY ANALYSIS: 272
REFERENCES 274
Chapter 8 277
STRATEGIES FOR CLUSTERING, CLASSIFYING,
INTEGRATING, STANDARDIZING AND VISUALIZING
MICROARRAY GENE EXPRESSION DATA 277
Willy Valdivia Granda
INTRODUCTION 277
MICROARRAY GENE EXPRESSION MATRIX 280
DISTANCE FUNCTIONS 284
UNSUPERVISED ANALYSIS AND CLUSTERING OF
MICROARRAY DATA 288
METHODS FOR VALIDATING UNSUPERVISED ANALYSIS 299
SUPERVISED MICROARRAY DATA ANALYSIS 303
NEAREST NEIGHBORS 306
SUPPORT VECTOR MACHINES 307
METHODS TO IMPROVE CLASSIFIER PERFORMANCE 312
GENETIC AND BIOCHEMICAL NETWORKS 314
ADDITIONAL METHODS FOR MICROARRAY DATA
ANALYSIS 315
xii
MICROARRAY DATA VISUALIZATION 317
MICROARRAY DATA STANDARDIZATION AND
INTEGRATION 319
MICROARRAY GENE EXPRESSION MARKUP
LANGUAGE (MAGE-ML) 322
MICROARRAYDATAREPOSITORIES 324
CHALLENGES IN MICROARRAY GENE EXPRESSION
DATAANALYSB 326
CONCLUSIONS 328
INDEX 341
xni
|
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| spellingShingle | A beginner's guide to microarrays DNA cabt Analytical Techniques cabt Microarrays cabt |
| title | A beginner's guide to microarrays |
| title_auth | A beginner's guide to microarrays |
| title_exact_search | A beginner's guide to microarrays |
| title_full | A beginner's guide to microarrays ed. by Eric M. Blalock |
| title_fullStr | A beginner's guide to microarrays ed. by Eric M. Blalock |
| title_full_unstemmed | A beginner's guide to microarrays ed. by Eric M. Blalock |
| title_short | A beginner's guide to microarrays |
| title_sort | a beginner s guide to microarrays |
| topic | DNA cabt Analytical Techniques cabt Microarrays cabt |
| topic_facet | DNA Analytical Techniques Microarrays |
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