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This volume is a valuable and timely resource for a broad audience with interests in basic and translational cancer biology, cancer drug development, as well as in the practice of personalized oncology. 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 tips on troubleshooting and avoiding known pitfalls.

Authoritative and cutting-edge, Cancer Gene Networks aims to ensure successful results in the further study of this evolving and vital field. Ultimately these efforts will guide development of transformative strategies for cancer diagnosis and treatment.

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1. Introduction- Cancer Gene Networks

Robert Clarke

2. Emerging Methods in Chemoproteomics with Relevance to Drug Discovery

Chuong Nguyen, Graham M. West, and Kieran F. Geoghegan

3. ANXA7-GTPase as Tumor Suppressor: Mechanisms and Therapeutic Opportunities

Ximena Leighton, Ofer Eidelman, Catherine Jozwik, Harvey B. Pollard, and Meera Srivastava

4. Experimental and Study Design Considerations for Uncovering Oncometabolites

Majda Haznadar and Ewy Mathé
5. Targeting Deubiquitinating Enzymes and Autophagy in Cancer

Ashley Mooneyham and Martina Bazzaro



6. Quantitative Clinical Imaging Methods for Monitoring Intratumoral Evolution

Joo Yeun Kim and Robert A. Gatenb

7. Transcriptome and Proteome Analyses of TNFAIP8 Knockdown Cancer Cells Reveal New Insights into Molecular Determinants of Cell Survival and Tumor Progression

Timothy F. Day, Rajshree R. Mewani, Joshua Starr, Xin Li, Debyani Chakravarty, Habtom Ressom, Xiaojun Zou, Ofer Eidelman, Harvey B. Pollard, Meera Srivastava, and Usha N. Kasid

8. Network-oriented Approaches to Anti-cancer Drug Response
Paola Lecca and Angela Re

9. CRISPR/Cas-mediated Knockin in Human Pluripotent Stem Cells

Nipun Verma, Zengrong Zhu, and Danwei Huangfu

10. Complete Transcriptome RNA-Seq

David F.B. Miller, Pearlly Yan, Fang Fang, Aaron Buechlein, Karl Kroll, David Frankhouser, Cameron Stump, Paige Stump, James B. Ford, Haixu Tang, Scott Michaels, Daniela Matei, Tim H. Huang, Jeremy Chien, Yunlong Liu, Douglas B. Rusch, and Kenneth P. Nephew

11. Computational Methods and Correlation of Exon-skipping Events with Splicing, Transcription and Epigenetic Factors

Jianbo Wang, Zhenqing Ye, Tim H. Huang, Huidong Shi, and Victor X. Jin

12. Tissue Engineering Platforms to Replicate the Tumor Microenvironment of Multiple Myeloma

Wenting Zhang, Woo Y. Lee, and Jenny Zilberberg

13. microRNA Target Prediction

William Ritchie



14. Evaluating the Delivery of Proteins to the Cytosol of Mammalian Cells

Andrea L. J. Marschall, Congcong Zhang, and Stefan Dübel

15. Validation of Biomarker Proteins using Reverse Capture Protein Microarrays

Catherine Jozwik, Ofer Eidelman, Joshua Starr, Harvey B. Pollard, and Meera Srivastava
16. Chemical Synthesis of Activity-Based Diubiquitin Probes
Guorui Li, Libo Yuan, and Zhihao Zhuang

17. Profiling the Dual Enzymatic Activities of the Serine/Threonine Kinase IRE1

Hannah C. Feldman and Dustin J. Maly

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