Chip Technology 1st Edition by Jorg Hoheisel ISBN 9783540432159 by Springer-verlag, Jorg Hoheisel 3540432159 instant download after payment.

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ISBN 13: 9783540432159
Author: Jorg Hoheisel

DNA-chip analysis has come a long way since the first conference in Moscow in 1991. Nowadays, DNA-microarrays seem to be a common commodity in biological sciences. The complexity hidden behind the apparent ease of such studies, however, is highlighted by the fact that it took about ten years before the methodology really set off. Also, on closer scrutiny, one realises that some problems still remain. Nevertheless, microarrays produce data on a scale beyond imagination a few years ago. The authors of the book took part in bringing this about. They are well-known experts in the field, many - like Edwin Southern, Hans Lehrach, Radoje Drmanac, Pavel Pevzner and Charles Cantor - have been actively pursuing array technology for more than a decade. They demonstrate the continuous development in both technology and application areas and elucidate on critical points that need to be considered when performing microarray analyses.

Chip Technology 1st Table of contents:

1. Placement Problem
2. DNA Arrays and the Traveling Salesman Problem
3. Threading
4. Rectangle Cover Problem
5. Mask Decomposition Problem
6. Conclusions
7. References
8. High-Density GeneChip Oligonucleotide Probe Arrays
9. Introduction
10. Array Production Technology
11. Substrate Preparation and General Approach
12. Photolithography
13. Light-Directed Synthesis Chemistry
14. Future Enhancements
15. Applications
16. Gene Expression Monitoring
17. Genotypic Analysis
18. Other Applications
19. References
20. Oligonucleotide Scanning Arrays: Application to High-Throughput Screening for Effective Antisense Re
21. Introduction
22. The Format of Scanning Arrays
23. Making and Reading Scanning Arrays
24. Fabrication
25. Solid Supports for Making Arrays
26. Masks for Making Arrays: Materials and Machining
27. Making Scanning Arrays on an ABI DNA/RNA Synthesiser
28. Deprotection of Arrays
29. Hybridisation of a Labeled Target to Scanning Arrays
30. Reading a Scanning Array Image
31. Applications
32. High-Throughput Screening of Antisense Reagents
33. The Study of Nucleic Acid Folding and Heteroduplex Formation
34. RNA Folding
35. Heteroduplex Formation
36. A Study of the Secondary Structure of Nucleic Acids with Modified Bases
37. Concluding Remarks
38. References
39. The Use of MassARRAY Technology for High Throughput Genotyping
40. Mass Spectrometry in the Biological Sciences
41. Mass Spectrometry
42. ESI MS
43. MALDI-TOF MS
44. Mass Spectrometry in the Protein World
45. Mass Spectrometry in the Carbohydrate World
46. Mass Spectrometry in the DNA World
47. Polymorphic Markers in the Genomic Sciences
48. Intraspecies Sequence Variations
49. Restriction Fragment Length Polymorphisms and Short Tandem Repeats
50. Single Nucleotide Polymorphisms
51. Pharmacogenomics
52. The Advantages of Mass Spectrometry for Genetic Diversity Detection
53. MassARRAY and High-Throughput Genotyping
54. Summary and Future Perspectives
55. References
56. Sequencing by Hybridization (SBH): Advantages, Achievements, and Opportunities
57. Introduction
58. Direct and Indirect DNA Sequencing
59. History of Sequencing by Hybridization
60. Principles of SBH
61. Proper Probe Length for SBH
62. Oligonucleotide Overlap Principle
63. Branching Points and Multiple Assembly Solutions
64. Universal and Target-Specific Sets of Probes
65. Probe Design and Hybridization Specificity
66. Highly Parallel Data Collection in Different Formats
67. SBH Studies on Arrays of Samples
68. SBH on DNA Arrays
69. Blind De Novo Sequencing Test on Arrays of Samples
70. Sample Arrays for Novel Polymorphism and Mutation Discovery
71. SBH on Arrays of Oligonucleotides
72. Initial SBH Tests on Probe Arrays
73. Use of Non-Universal Arrays of Probes
74. Hybridization Combined with Polymerase
75. Hybridization Combined with Ligase: Combinatorial Probe Scoring
76. A Combinatorial SBH Blind Test
77. De Novo Sequencing, Comparative Sequencing and Genotyping Using Combinatorial Ligation and the HyChi
78. Future Research Directions
79. Hybridization Technologies
80. Hybridization Chemistry
81. Advanced SBH Applications
82. Conclusion
83. References
84. Protein Array Technology: The Tool to Bridge Genomics and Proteomics
85. Introduction
86. From 2D Electrophoresis and Microtitre Plates to Microarrays of Biomolecules
87. Requirements for Protein Arrays
88. Planar Immobilisation of Proteins
89. Detection of Molecular Interactions on Microarrays
90. Applications of Protein Arrays
91. Outlook
92. References
93. Microarray Data Representation, Annotation and Storage
94. Introduction
95. Minimum Information About a Microarray Experiment
96. Structure and Design of the ArrayExpress Database
97. Object Modeling, UML and OMT Notations
98. Basic Model – ArrayExpressB
99. Experiment as a Whole
100. Experiment
101. Hybridization
102. Describing Arrays and Array Types
103. ArrayType
104. Element
105. Biosequence
106. Extract Preparation
107. SampleSource
108. Sample
109. Treatment
110. Extraction and Extract
111. Labeling and LabeledExtract
112. Array Scanning and Analysis
113. Image
114. ImageAnalysis
115. ExpressionValueSet, ExpressionValue and ExpressionValueType
116. Common Constructs
117. Description
118. Protocol
119. Property
120. PropertyType
121. ExternalReference
122. LiteratureReference
123. DatabaseReference
124. OntologyReference
125. WebReference
126. Complete Model – ArrayExpressC
127. Experiment as a Whole
128. Hybridization
129. Describing Arrays and Array Types
130. Array and ArrayBatch
131. Element
132. Reporter
133. Extract Preparation
134. Biomaterial
135. Event
136. Sample
137. Array Scanning and Analysis
138. ImageAnalysis
139. ExpressionValueSet
140. ExpressionValue
141. ExpressionValueDimension
142. ExpressionValueType
143. CompositeElement
144. CompositeSample
145. Transformation
146. Common Constructs
147. Implementation Issues
148. Database Implementation
149. Data Queries,Mining and Visualization

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