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Cancer Genomics and Proteomics

Methods and Protocols

  • Book
  • © 2014

Overview

Editors:
  1. Narendra Wajapeyee

    1. Department of Pathology& Yale Cancer Center, Yale University School of Medicine, New Haven, USA

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  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1176)

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Table of contents (20 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. Genome-Wide Mapping of RNA Pol-II Promoter Usage in Mouse Tissues by ChIP-Seq

    • Sharmistha Pal, Ravi Gupta, Ramana V. Davuluri
    Pages 1-9

  3. Using Native Chromatin Immunoprecipitation to Interrogate Histone Variant Protein Deposition in Embryonic Stem Cells

    • Zito Tseng, Tao Wu, Yifei Liu, Mei Zhong, Andrew Xiao
    Pages 11-22

  4. Reduced Representation Bisulfite Sequencing to Identify Global Alteration of DNA Methylation

    • Arvindhan Nagarajan, Christine Roden, Narendra Wajapeyee
    Pages 23-31

  5. A High-Throughput MicroRNA Expression Profiling System

    • Yanwen Guo, Stephen Mastriano, Jun Lu
    Pages 33-44

  6. Using Pooled miR30-shRNA Library for Cancer Lethal and Synthetic Lethal Screens

    • Liam Changwoo Lee, Shaojian Gao, Qiuning Li, Ji Luo
    Pages 45-58

  7. A Diphtheria Toxin Negative Selection in RNA Interference Screening

    • Zhi Sheng, Susan F. Murphy, Sujuan Guo, Michael R. Green
    Pages 59-72

  8. Cancer Metabolism: Cross Talk Between Signaling and O-GlcNAcylation

    • Christina M. Ferrer, Mauricio J. Reginato
    Pages 73-88

  9. Targeted Genome Modification via Triple Helix Formation

    • Adele S. Ricciardi, Nicole A. McNeer, Kavitha K. Anandalingam, W. Mark Saltzman, Peter M. Glazer
    Pages 89-106

  10. Synthesis of Stabilized Alpha-Helical Peptides

    • Federico Bernal, Samuel G. Katz
    Pages 107-114

  11. Arginine-Grafted Biodegradable Polymer: A Versatile Transfection Reagent for both DNA and siRNA

    • Jagadish Beloor, Hye Yeong Nam, Sang-Kyung Lee, Priti Kumar
    Pages 115-126

  12. Using LacO Arrays to Monitor DNA Double-Strand Break Dynamics in Live Schizosaccharomyces pombe Cells

    • Bryan A. Leland, Megan C. King
    Pages 127-141

  13. Zebrafish as a Platform to Study Tumor Progression

    • Corrie A. Painter, Craig J. Ceol
    Pages 143-155

  14. Clonal Screens to Find Modifiers of Partially Penetrant Phenotypes in C. elegans

    • Michael E. Hurwitz
    Pages 157-167

  15. Serum Profiling Using Protein Microarrays to Identify Disease Related Antigens

    • Donald Sharon, Michael Snyder
    Pages 169-178

  16. Interrogation of In Vivo Protein–Protein Interactions Using Transgenic Mouse Models and Stable Isotope Labeling

    • Anwesha Dey, Jiansheng Wu, Donald S. Kirkpatrick
    Pages 179-190

  17. New Biophysical Methods to Study the Membrane Activity of Bcl-2 Proteins

    • Stephanie Bleicken, Ana J. García-Sáez
    Pages 191-207

  18. Purification of Recombinant 2XMBP Tagged Human Proteins from Human Cells

    • Ryan Jensen
    Pages 209-217

  19. Computational Analysis in Cancer Exome Sequencing

    • Perry Evans, Yong Kong, Michael Krauthammer
    Pages 219-227

  20. Matrix Factorization Methods for Integrative Cancer Genomics

    • Shihua Zhang, Xianghong Jasmine Zhou
    Pages 229-242
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Keywords

About this book

Cancer Genomics and Proteomics: Methods and Protocols, Second Edition includes methods for the analyses of cancer genome and proteome that have illuminated us about the changes in cancer cells. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Cancer Genomics and Proteomics: Methods and Protocols, Second Edition seeks to aid scientists in the further study into various aspects of tumor initiation and progression.

Editors and Affiliations

  • Department of Pathology& Yale Cancer Center, Yale University School of Medicine, New Haven, USA

    Narendra Wajapeyee

Bibliographic Information

  • Book Title: Cancer Genomics and Proteomics

  • Book Subtitle: Methods and Protocols

  • Editors: Narendra Wajapeyee

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-0992-6

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media New York 2014

  • Hardcover ISBN: 978-1-4939-0991-9Published: 17 July 2014

  • Softcover ISBN: 978-1-4939-4654-9Published: 17 September 2016

  • eBook ISBN: 978-1-4939-0992-6Published: 16 July 2014

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 2

  • Number of Pages: XI, 262

  • Number of Illustrations: 21 b/w illustrations, 23 illustrations in colour

  • Topics: Cancer Research, Human Genetics, Proteomics

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