Protein Microarrays/ Ram Dayal Singh
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TextPublication details: New Delhi: International Scientific Publishing Academy, 2011Description: x, 278pISBN: 9788182930452DDC classification: 612 | Item type | Current library | Call number | Status | Date due | Barcode | Item holds |
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General Books
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Central Library, Sikkim University General Book Section | 612 SIN/P (Browse shelf(Opens below)) | Available | P31467 |
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| 612 PAL/T Textbook of practical physiology/ | 612 PAL/T Textbook of practical physiology/ | 612 PAL/T Textbook of practical physiology/ | 612 SIN/P Protein Microarrays/ | 612 TAN/B Best and Taylor's Physiological Basis Of Medical Practice/ | 612.0076 AND/H Human Anatomy & Physiology Coloring Workbook/ | 612.0078 DON/L A Laboratory Textbook of Anatomy and Physiology/ cat version |
1. PROTEIN MICROARRAYS 1
Protein Therapeutics 2
Applications of Protein Microarrays 3
Problems and Challenges 5
Sample Preparation and Handling 5
Microarray Platform 7
Detection Technologies 7
Data Analysis 8
Potential Solutions 8
2. DEVELOPMENT OF A PROTEIN MICROARRAY 11
Protein Microarray Technologies 13
Assays on a Microspot 15
Types of Spot-based Array Formats 16
Capture Agents 19
Solid Support and Surface Chemistry 21
Arraying Devices for Immobilisation of
Capture Agents 23
Signal Generation and Signal Detection 24
Classification Protein Microarrays 27
Protein Expression Microarrays 27
Protein Function Microarrays 29
Protein Biomarker Screening 30
Rheumatoid Arthritis 32
Etiology of- Rheumatoid Arthritis 34
Pathogenesis of Rheumatoid Arthritis 35
Treatment of Rheumatoid Arthritis 39VIII Protein Microarra'ss
3. PROTEIN MICROARRAY GENERATION
AND DETECTION 42
Immobilization Strategies 43
Via Biotin-Avidin Interaction 44
In Vitro Biotinylation of Proteins 44
PCR-based In vitro Biotinylation of Proteins 47
In vivo Biotinylation of Proteins 48
Via N-terminal Cysteine 49
Detection Strategies 50
Mechanism-based Inhibitor Probes on Array 52
Protein Profiling using Fluorogenic Substrates 53
Array Fabrication 56
4. PROTEIN STRUCTURE 58
Peptide Bond 61
Protein Secondary Structure 62
a-Helix 62
Effects of Amino Acid Sequence 65
p Conformation 68
Characteristic Bond Angles and Amino Acid
Contents 69
Protein Tertiary and Quaternary Structures 71
Fibrous Proteins 72
a-Keratin 73
Functional Diversity in Globular Proteins 79
Tertiary Structures in Globular Proteins 83
Common Structural Patterns 86
Structural Classification 91
Protein Quaternary Structures 92
5. PROPERTIES AND EVOLUTION OF PROTEINS 97
Electrophoresis 100
Unseparated Proteins 104
Covalent Structure of Proteins 106
Role ofAmino Acid Sequence 107
Sequenced using Automated Procedures 109
Sequence of Large Proteins 111
Breaking Disulfide Bonds III
Sequencing of Peptides 112
Ordering Peptide Fragments US
Locating Disulfide Bonds 113CONTKNTS IX
Small Peptide and Proteins 114
Protein Sequences and Evolution 117
6. PROTEIN DENATURATION AND FOLDING 125
Amino Acid Sequence Determines Tertiary Structure 127
Polypeptides Fold Rapidly by a Stepwise Process 128
Protein Folding 132
Principles of Protein Folding 134
Hydrophobic Interactions 135
Experimental Evidence 136
Simple Exact Models 137
Salt-Induced Detour 141
Triangular Scheme between D,C and N 143
Using Salt to Collapse the Denatured Ensemble 145
Protein Engineering Analysis of the Structure ofC 149
7. FOLDING FUNNELS AND FRUSTRATION 154
p-Barrel Model 1^2
Signatures of Good and Bad Folders 164
Thermodynamics 154
Kinetics 155
8. PROTEIN FOLDING PATHWAYS AND KINETICS 170
Characteristics of Folding Kinetics 17g
Intermediates and Folding Pathways 184
Folding Speed and Topology 187
Kinetic Folding Pathway of p-sheet Protein 191
Stopped-flow Fluorescence Measurements 195
Quenched-flow Experiments 195
Equilibrium Unfolding 198
Anomalous CD Overshoot Phenomenon 200
Amide Proton Protection 202
Hydrophobic Collapse Detected by ANS Fluorescence 204
Comparison with Folding Kinetics ofInterleukin-1p 208
Significance ofthe Hydrophobic Collapse 209
9. PROTEIN DESIGN 212
Protein Modeling 214
Learning the Interaction Potentials 216
Designing PDB Structures 220
Similarities of Homologous Sequences 222
10. evolution OFPROTEIN THERMODYNAMICS 229
Evolutionary Steady-state 231X Protein Microarrans
Protein Sequence-structure Compatibility 240
Pfotein Structure Prediction and Sequence Design 242
11. CANCER CELLS USING PROTEIN
MICROARRAYS 244
Cell—Lines Culture,and Irradiation 246
Extraction and Delipidation 246
Detection of Protein Interactions 248
Analysis of Differential Protein Expression 248
Imunoblot Analysis 250
Qualitative Protein Levels in Antibody Microarrays 250
12. VALIDATION OF MICROARRAYS 260
AimsofValidation 260
Challenges ofValidation 261
Validation in Silico 264
Validation using PCR 268
Qualitative PCR 269
Semi-Quantitative PCR 270
Real-time Quantitative PCR 273
Double-stranded DNA-binding
Agents 273
Validation Using Protein Antibodies 277
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