Tumor Biomarker Discovery

About this book

Through a variety of mechanisms, cancer cells provide the biomarker material that can lead to their own detection, which then grants clinicians the opportunity for non-invasive body fluid and tissue analysis able to indicate the presence of tumors or the level of tumor burden. In Tumor Biomarker Discovery: Methods and Protocols, experts in the field present detailed chapters focused on the use and development of panels of biomarker analytes while covering subjects such as nucleic acids and protein-based technologies, metabolic profiling by analytic means or spectroscopy, as well as study designs for biomarker discovery and validation. Written in the highly successful Methods in Molecular Biology™ series format, chapters include brief introductions to the topics, lists of the necessary materials or reagents, step-by-step laboratory protocols, and notes on troubleshooting and avoiding known pitfalls.

Cutting-edge and authoritative, Tumor Biomarker Discovery: Methods and Protocols is an ideal guide to the technologies that can be used to discover and validate tumor biomarker panels suitable for the presymptomatic early detection of cancer.

Written for: Immunologists, cancer researchers, clinicians, pharmaceutical scientists, molecular and cellular biologists

Keywords:

• 2D liquid chromatography
• Biomarker analyte panels
• Cancer detection
• Human immune system
• Magnetic resonance spectroscopy
• Mass spectroscopy
• Protein microarrays

Table of contents

1. Identification of Tumor-Associated Antigens (TAAs) as Diagnostic and Predictive Biomarkers in Cancer
Jian-Ying Zhang, Kok Sun Looi, and Eng M. Tan

2. Autoantibodies against Cancer Antigens
Sacha Gnjatic, Lloyd J. Old, and Yao-Tseng Chen

3. Discovery of Antibody Biomarkers Using Protein Microarrays of Tumor Antigens Cloned in High-Throughput
Madhumita Chatterjee, Jerzy Wojciechowski, and Michael A. Tainsky

4. Analysis of Glycans on Serum Proteins Using Antibody Microarrays
Songming Chen and Brian B. Haab

5. Glycoproteomic Analysis by Two Dimensional Electrophoresis
Mary Ann Comunale and Anand Mehta

6. All-Liquid Separations, Protein Microarrays and Mass Spectrometry to Interrogate Serum Proteomes: An Application to Serum Glycoproteomics
Tasneem H. Patwa, Yinghua Qiu, Jia Zhao, Diane M. Simeone, and David M. Lubman

7. Reverse Phase Protein Microarrays for Theranostics and Patient Tailored Therapy
Virginia Espina, Lance A. Liotta, and Emanuel F. Petricoin III

8. Serum Proteomics Using Mass Spectrometry
Brian L. Hood, David E. Malehorn, Thomas P. Conrads, and William L. Bigbee

9. Hormones as Biomarkers: Practical Guide to Utilizing Luminex Technolgies for Biomarker Research
Faina Linkov, Zoya Yurkovetsky, and Anna Lokshin

10. High-Throughput Analysis of Serum Antigens Using Sandwich ELISAs on Microarrays
Shannon L. Servoss, Rachel Gonzalez, Susan Varnum, and Richard C. Zangar

11. Tissue Microarrays as a Tool in the Discovery and Validation of Tumor Markers
Stephen M. Hewitt

12. Quantitative, Fluorescence-Based In-Situ Assessment of Protein Expression
Christopher B. Moeder, Jennifer M. Giltnane, Sharon Pozner Moulis, and David L. Rimm

13. Tumor Marker Discovery by Expression Profiling RNA from Formalin Fixed Paraffin Embedded Tissues
Maureen T. Cronin, Debjani Dutta, Mylan Pho, Anhthu Nugyen, Jennie Jeong, and Mei-Lan Liu

14. High-Throughput Mutation Screening Using a Single Amplification Condition
Lijia Shi and John E. Landers

15. DNA Sequencing of Cancer-Related Genes for Biomarker Discovery
Lisa M. Farwell and Victoria A. Joshi

16. Analysis of Loss of Heterozygosity in Circulating DNA
Takeshi Nakamura, Eiji Sunami, and Dave S. B. Hoon

17. Pharmacogenomics
Shilong Zhong and Marjorie Romkes

18. Study Designs in Genetic Epidemiology
Michele L. Cote

19. Developing Classifiers for the Detection of Cancer Using Multi-Analytes
Adi Laurentiu Tarca, Sorin Draghici, and Roberto Romero

20. Metabolomics of Cancer
Natalie J. Serkova and Kristine Glunde

21. MRI and MRS of Human Brain Tumors
Bob L. Hou and Jiani Hu

22. Magnetic Resonance Spectroscopy of Living Tissues
Natalie J. Serkova, Kendra M. Hasebroock, and Susan L. Kraft