Meticulous exploration into state-of-the-art methods and protocols for microarray technology
Authors examine bioinformatics, an important aspect in analyzing large amounts of data that emerge during experiments
This second part in the two-volume work Microarrays details applications and data analysis, which is important in analyzing the enormous data coming out of microarray experiments. It includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays. The two-volume Microarrays presents information in designing and fabricating arrays and binding studies with biological analytes while providing the reader with a broad deillegalscription of microarray technology tools and their potential applications. It provides ample information to all levels of scientists from novice to those intimately familiar with array technology. The first volume deals with methods and protocols for the preparation of microarrays.
Table of Contents Microarray Technology Volume 2 - Applications and Data Analysis 1. The Use of Microarray Technology in Non-mammalian Vertebrate Systems Conor W. Sipe and Margaret S. Saha 2. Quality Considerations and Selection of Surface Chemistry for Glass-Based DNA, Peptide, Antibody, Carbohydrate, and Small Molecule Microarrays. Jens Sobek*, Catharine Aquino and Ralph Schlapbach 3. Optimization Workflow for the Processing of High Quality Glass-Based Microarrays. Application in DNA, Peptide, Antibody, and Carbohydrate Microarraying. Jens Sobek*, Catharine Aquino and Ralph Schlapbach 4. Processing Protocols for High Quality Glass-Based Microarrays. Application in DNA, Peptide, Antibody and Carbohydrate Microarraying. Jens Sobek*, Catharine Aquino and Ralph Schlapbach 5. Specific Detection of Bacterial Pathogens Using Oligonucleotide Microarrays Generated from Hydrolysis PCR Probe Sequences Philip J.R.Day 6. Uses of Microarray Platforms in Cancer: A Correlative Study between Genomic Copy Number Changes and Their Expression at mRNA and Protein Level Fahd Al-Mulla 7. Microarray Technology for Use in Molecular Epidemiology Suzanne D. Vernon and Toni Whistler 8. Utilization of Microarray Platforms in Clinical Practice: An Insight on the Preparation and Amplification of Nucleic Acids from Frozen and Fixed Tissues Fahd Al-Mulla 9. A Microarray Based Method to Profile Global microRNA Expression in Human and Mouse Ranjan Perera 10. Genotyping of Single Nucleotide Polymorphisms by Arrayed Primer Extension Scott J. Tebbutt 11. Protein Chip for Detection of DNA Mutations Xian-En Zhang and Li-Jun Bi 12. Screening of cDNA Libraries on Glass Slide Microarrays. Dave K Berger, Bridget G. Crampton, Ingo Hein and Wiesner Vos 13. Automated Target Preparation Methods for Affymetrix Gene Expression Cartridges Handy Yowanto 14. Tumor-Stroma Interactions of Metastatic Prostate Cancer Cells Lines - Analysis Using Microarrays Nicolas Wernert, Annette Kaminski, El-Mustapha Haddouti and Jens Claus Hahne 15. Identification of Small Molecule Targets on Functional Protein Microarrays Michael Salcius, Gregory A. Michaud, Berry Schweitzer and Paul F. Predki 16. Quantification of Small Molecules Using Microarray Technology Martin Dufva and Claus BV Christensen 17. Antibody-microarrays on Hybrid Polymeric Thin Film Coated Slides for Multiple-protein Immunoassays Xichun Zhou and Jizhong Zhou 18. Overprint Immunoassay Using Protein A Microarrays Robert S. Matson, Raymond C. Milton, Jang B. Rampal, Tom S. Chan, and Michael C. Cress 19. ºParaflo Biochip for Nucleic Acid and Protein Analysis Qi Zhu, Ailing Hong, Nijing Sheng, Xiaolin Zhang, Anna Matejko, Kyu-Yeon Jun, Onnop Srivannavit, Erdogan Gulari, Xiaolian Gao and Xiaochuan Zhou 20. Application of Protein Chip Array Profiling in Serum Biomarker Discovery for Patients Suffering from Severe Acute Respiratory Syndrome (SARS) Timothy T. C. Yip, William C. S. Cho, Wai-Wai Cheng, Johnny W. M. Chan, Victor W. S. Ma, Tai-Tung Yip,Christine Yip, Roger K. C. Ngan and Stephen C. K. Law 21. Volumetric Mass Spectrometry Protein Arrays Dobrin Nedelkov, Urban A. Kiernan, Eric E. Niederkofler, Kemmons A. Tubbs and Randall W. Nelson 22. Microarray Data Classified by Artificial Neural Networks Roland Linder, Tereza Richards, Mathias Wagner 23. Methods for Microarray Data Analysis Veronique De Bruyne, Fahd Al-Mulla, Bruno Pot 24. Predicting DNA Duplex Stability on Oligonucleotide Arrays Arnold Vainrub, Norha Deluge, Xiaolin Zhang, Xiaochuan Zhou, and Xiaolian
This second part in the two-volume work Microarrays details applications and data analysis. It includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays.
Microarray Technology, Volumes 1 and 2, present information in designing and fabricating arrays and binding studies with biological analytes while providing the reader with a broad deillegalscription of microarray technology tools and their potential applications. The first volume deals with methods and protocols for the preparation of microarrays. The second volume details applications and data analysis, which is important in analyzing the enormous data coming out of microarray experiments.
Volume 2: Applications and Data Analysis includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays. Applications in DNA, peptide, antibody and carbohydrate microarraying, oligonucleotide microarrays generated from hydrolysis PCR probe sequences, microarray platforms in clinical practice, and screening of cDNA libraries on glass slide microarrays. Authors in this volume also discuss paraflo biochip for nucleic acid and protein analysis, volumetric mass spectrometry protein arrays, protocols for predicting DNA duplex stability on oligonucleotide arrays, and integrated analysis of microarray results.
Microarray Technology, Volumes 1 and 2, provide ample information to all levels of scientists from novice to those intimately familiar with array technology.
The Use of Microarray Technology in Nonmammalian Vertebrate Systems.- Quality Considerations and Selection of Surface Chemistry for Glass-Based DNA, Peptide, Antibody, Carbohydrate, and Small Molecule Microarrays.- Optimization Workflow for the Processing of High Quality Glass-Based Microarrays.- Processing Protocols for High Quality Glass-Based Microarrays.- Specific Detection of Bacterial Pathogens Using Oligonucleotide Microarrays Generated From Hydrolysis PCR Probe Sequences.- Uses of Microarray Platforms in Cancer.- Microarray Technology for Use in Molecular Epidemiology.- Utilization of Microarray Platforms in Clinical Practice.- A Microarray-Based Method to Profile Global microRNA Expression in Human and Mouse.- Genotyping of Single Nucleotide Polymorphisms by Arrayed Primer Extension.- Protein Chip for Detection of DNA Mutations.- Screening of cDNA Libraries on Glass Slide Microarrays.- ArrayPlex SA.- Tumor-Stroma Interactions of Metastatic Prostate Cancer Cell Lines.- Identification of Small Molecule Targets on Functional Protein Microarrays.- Quantification of Small Molecules Using Microarray Technology.- Antibody-Microarrays on Hybrid Polymeric Thin Film-Coated Slides for Multiple-Protein Immunoassays.- Overprint Immunoassay Using Protein A Microarrays.- ?Paraflo(TM) Biochip for Nucleic Acid and Protein Analysis.- Application of ProteinChip Array Profiling in Serum Biomarker Discovery for Patients Suffering From Severe Acute Respiratory Syndrome.- Volumetric Mass Spectrometry Protein Arrays.- Microarray Data Classified by Artificial Neural Networks.- Methods for Microarray Data Analysis.- Predicting DNA Duplex Stability on Oligonucleotide Arrays.- Bioinformatics.- In Silico Gene Selection for Custom Oligonucleotide Microarray Design.- Integrated Analysis ofMicroarray Results.
Inhaltsverzeichnis
Table of Contents
Microarray Technology
Volume 2 - Applications and Data Analysis
1. The Use of Microarray Technology in Non-mammalian Vertebrate Systems
Conor W. Sipe and Margaret S. Saha
2. Quality Considerations and Selection of Surface Chemistry for Glass-Based DNA, Peptide, Antibody, Carbohydrate, and Small Molecule Microarrays.
Jens Sobek*, Catharine Aquino and Ralph Schlapbach
3. Optimization Workflow for the Processing of High Quality Glass-Based Microarrays. Application in DNA, Peptide, Antibody, and Carbohydrate Microarraying.
Jens Sobek*, Catharine Aquino and Ralph Schlapbach
4. Processing Protocols for High Quality Glass-Based Microarrays. Application in DNA, Peptide, Antibody and Carbohydrate Microarraying.
Jens Sobek*, Catharine Aquino and Ralph Schlapbach
5. Specific Detection of Bacterial Pathogens Using Oligonucleotide Microarrays Generated from Hydrolysis PCR Probe Sequences
Philip J.R.Day
6. Uses of Microarray Platforms in Cancer: A Correlative Study between Genomic Copy Number Changes and Their Expression at mRNA and Protein Level
Fahd Al-Mulla
7. Microarray Technology for Use in Molecular Epidemiology
Suzanne D. Vernon and Toni Whistler
8. Utilization of Microarray Platforms in Clinical Practice: An Insight on the Preparation and Amplification of Nucleic Acids from Frozen and Fixed Tissues
Fahd Al-Mulla
9. A Microarray Based Method to Profile Global microRNA Expression in Human and Mouse
Ranjan Perera
10. Genotyping of Single Nucleotide Polymorphisms by Arrayed Primer Extension
Scott J. Tebbutt
11. Protein Chip for Detection of DNA Mutations
Xian-En Zhang and Li-Jun Bi
12. Screening of cDNA Libraries on Glass Slide Microarrays.
Dave K Berger, Bridget G. Crampton, Ingo Hein and Wiesner Vos
13. Automated Target Preparation Methods for Affymetrix Gene Expression Cartridges
Handy Yowanto
14. Tumor-Stroma Interactions of Metastatic Prostate Cancer Cells Lines - Analysis Using Microarrays
Nicolas Wernert, Annette Kaminski, El-Mustapha Haddouti and Jens Claus Hahne
15. Identification of Small Molecule Targets on Functional Protein Microarrays
Michael Salcius, Gregory A. Michaud, Berry Schweitzer and Paul F. Predki
16. Quantification of Small Molecules Using Microarray Technology
Martin Dufva and Claus BV Christensen
17. Antibody-microarrays on Hybrid Polymeric Thin Film Coated Slides for Multiple-protein Immunoassays
Xichun Zhou and Jizhong Zhou
18. Overprint Immunoassay Using Protein A Microarrays
Robert S. Matson, Raymond C. Milton, Jang B. Rampal, Tom S. Chan, and Michael C. Cress
19. ºParaflo Biochip for Nucleic Acid and Protein Analysis
Qi Zhu, Ailing Hong, Nijing Sheng, Xiaolin Zhang, Anna Matejko, Kyu-Yeon Jun, Onnop Srivannavit, Erdogan Gulari, Xiaolian Gao and Xiaochuan Zhou
20. Application of Protein Chip Array Profiling in Serum Biomarker Discovery for Patients Suffering from Severe Acute Respiratory Syndrome (SARS)
Timothy T. C. Yip, William C. S. Cho, Wai-Wai Cheng, Johnny W. M. Chan, Victor W. S. Ma, Tai-Tung Yip,Christine Yip, Roger K. C. Ngan and Stephen C. K. Law
21. Volumetric Mass Spectrometry Protein Arrays
Dobrin Nedelkov, Urban A. Kiernan, Eric E. Niederkofler, Kemmons A. Tubbs and Randall W. Nelson
22. Microarray Data Classified by Artificial Neural Networks
Roland Linder, Tereza Richards, Mathias Wagner
23. Methods for Microarray Data Analysis
Veronique De Bruyne, Fahd Al-Mulla, Bruno Pot
24. Predicting DNA Duplex Stability on Oligonucleotide Arrays
Arnold Vainrub, Norha Deluge, Xiaolin Zhang, Xiaochuan Zhou, and Xiaolian
Klappentext
This second part in the two-volume work Microarrays details applications and data analysis. It includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays. Coverage includes applications in DNA, peptide, antibody and carbohydrate microarraying, oligonucleotide microarrays generated from hydrolysis PCR probe sequences, microarray platforms in clinical practice, and screening of cDNA libraries on glass slide microarrays. Authors in this volume also discuss protocols for predicting DNA duplex stability on oligonucleotide arrays and integrated analysis of microarray results.
This second part in the two-volume work Microarrays details applications and data analysis, which is important in analyzing the enormous data coming out of microarray experiments. It includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays. The two-volume Microarrays presents information in designing and fabricating arrays and binding studies with biological analytes while providing the reader with a broad deillegalscription of microarray technology tools and their potential applications. It provides ample information to all levels of scientists from novice to those intimately familiar with array technology. The first volume deals with methods and protocols for the preparation of microarrays.
