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El. knyga: Dna Microarray Technology And Data Analysis In Cancer Research

(Univ Of Massachusetts Medical School, Usa), (Edith Cowan Univ, Australia)
  • Formatas: 132 pages
  • Išleidimo metai: 04-Feb-2009
  • Leidėjas: World Scientific Publishing Co Pte Ltd
  • Kalba: eng
  • ISBN-13: 9789814472005
Kitos knygos pagal šią temą:
  • Formatas: 132 pages
  • Išleidimo metai: 04-Feb-2009
  • Leidėjas: World Scientific Publishing Co Pte Ltd
  • Kalba: eng
  • ISBN-13: 9789814472005
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DNA microarray technology has become a useful technique in gene expression analysis for the development of new diagnostic tools and for the identification of disease genes and therapeutic targets for human cancers. Appropriate control for DNA microarray experiment and reliable analysis of the array data are key to performing the assay and utilizing the data correctly. The most difficult challenge has been the lack of a powerful method to analyze the data for all genes (more than 30,000 genes) simultaneously and to use the microarray data in a decision-making process. In this book, the authors describe DNA microarray technology and data analysis by pointing out current advantages and disadvantages of the technique and available analytical methods. Crucially, new ideas and analytical methods based on the authors' own experience in DNA microarray study and analysis are introduced. It is believed that this new way of interpreting and analyzing microarray data will bring us closer to success in decision-making using the information obtained through the DNA microarray technology.
Preface v
Introduction of Authors vii
DNA Microarray Technology
1(10)
Experimental Procedure
2(2)
Experimental Design
4(2)
Quality Control
6(2)
Interpretation of DNA Microarray Data
8(1)
Advantages and Disadvantages
8(3)
Applications of DNA Microarray Technology in Cancer Research
11(10)
Solid Tumors
11(1)
Blood Cancers
12(1)
Our DNA Microarray Study Using Mouse Model of BCR-ABL-Induced Leukemia
13(8)
Leukemia mouse model study
15(4)
Cell line study
19(2)
Current Analytical Methods of DNA Microarray Data
21(16)
Experimental Design
21(1)
Method
21(4)
Robust multi-chip averaging (RMA)
21(1)
iterPLIER
22(3)
Quality Control Diagnostics
25(7)
Saturation
25(3)
Transformed intensities across arrays
28(1)
Normalized intensities across arrays
29(1)
Scatterplot of normalized intensities
30(1)
Average MA plot of normalized intensities
31(1)
Statistical Analysis
32(4)
Analysis of variance (ANOVA) model
32(1)
Contrasts
33(3)
Coefficient of Variation Analysis
36(1)
A Novel Method for DNA Microarray Data Analysis: SDL Global Optimization Method
37(18)
Research Subjects
38(1)
Experimental Design
39(1)
Rationale
39(1)
Fold Change Analysis
40(11)
More Information on SDL Global Optimization
51(4)
Genetic algorithms (GAs)
53(1)
SDL global optimization algorithms
54(1)
Applications of the SDL Global Optimization Method in DNA Microarray Data Analysis
55(46)
Leukemia Cell Line Study
55(8)
Introduction
55(1)
Datasets
55(1)
Analysis strategies
55(7)
Discussion and conclusion
62(1)
Analyses of Publicly Available Human Microarray Data
63(8)
Introduction
63(7)
Datasets
70(1)
Overall Methodology
71(12)
Orthogonal arrays (OAs) and sampling procedure
71(3)
Objective function
74(2)
Search space reduction for global search
76(4)
Mathematical form of SDL optimization
80(2)
Multi-subset class predictor
82(1)
Validation (predicting through a voting mechanism)
83(1)
Experimental Results
83(7)
Discussion
90(9)
Conclusion
99(2)
General Discussion and Future Directions
101(4)
References 105(12)
Index 117