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 description 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 ContentsMicroarray TechnologyVolume 2 - Applications and Data Analysis1. The Use of Microarray Technology in Non-mammalian Vertebrate SystemsConor W. Sipe and Margaret S. Saha2. Quality Considerations and Selection of Surface Chemistry for Glass-Based DNA, Peptide, Antibody, Carbohydrate, and Small Molecule Microarrays.Jens Sobek*, Catharine Aquino and Ralph Schlapbach3. 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 Schlapbach4. Processing Protocols for High Quality Glass-Based Microarrays. Application in DNA, Peptide, Antibody and Carbohydrate Microarraying.Jens Sobek*, Catharine Aquino and Ralph Schlapbach5. Specific Detection of Bacterial Pathogens Using Oligonucleotide Microarrays Generated from Hydrolysis PCR Probe SequencesPhilip J.R.Day6. Uses of Microarray Platforms in Cancer: A Correlative Study between Genomic Copy Number Changes and Their Expression at mRNA and Protein LevelFahd Al-Mulla7. Microarray Technology for Use in Molecular EpidemiologySuzanne D. Vernon and Toni Whistler8. Utilization of Microarray Platforms in Clinical Practice: An Insight on the Preparation and Amplification of Nucleic Acids from Frozen and Fixed TissuesFahd Al-Mulla9. A Microarray Based Method to Profile Global microRNA Expression in Human and MouseRanjan Perera10. Genotyping of Single Nucleotide Polymorphisms by Arrayed Primer ExtensionScott J. Tebbutt11. Protein Chip for Detection of DNA MutationsXian-En Zhang and Li-Jun Bi12. Screening of cDNA Libraries on Glass Slide Microarrays.Dave K Berger, Bridget G. Crampton, Ingo Hein and Wiesner Vos13. Automated Target Preparation Methods for Affymetrix Gene Expression CartridgesHandy Yowanto14. Tumor-Stroma Interactions of Metastatic Prostate Cancer Cells Lines - Analysis Using MicroarraysNicolas Wernert, Annette Kaminski, El-Mustapha Haddouti and Jens Claus Hahne15. Identification of Small Molecule Targets on Functional Protein MicroarraysMichael Salcius, Gregory A. Michaud, Berry Schweitzer and Paul F. Predki16. Quantification of Small Molecules Using Microarray TechnologyMartin Dufva and Claus BV Christensen17. Antibody-microarrays on Hybrid Polymeric Thin Film Coated Slides for Multiple-protein ImmunoassaysXichun Zhou and Jizhong Zhou18. Overprint Immunoassay Using Protein A MicroarraysRobert S. Matson, Raymond C. Milton, Jang B. Rampal, Tom S. Chan, and Michael C. Cress19. ºParaflo Biochip for Nucleic Acid and Protein AnalysisQi Zhu, Ailing Hong, Nijing Sheng, Xiaolin Zhang, Anna Matejko, Kyu-Yeon Jun, Onnop Srivannavit, Erdogan Gulari, Xiaolian Gao and Xiaochuan Zhou20. 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. Law21. Volumetric Mass Spectrometry Protein ArraysDobrin Nedelkov, Urban A. Kiernan, Eric E. Niederkofler, Kemmons A. Tubbs and Randall W. Nelson22. Microarray Data Classified by Artificial Neural NetworksRoland Linder, Tereza Richards, Mathias Wagner23. Methods for Microarray Data AnalysisVeronique De Bruyne, Fahd Al-Mulla, Bruno Pot24. Predicting DNA Duplex Stability on Oligonucleotide ArraysArnold Vainrub, Norha Deluge, Xiaolin Zhang, Xiaochuan Zhou, and Xiaolian