Colorectal Cancer: Methods and Protocols

Dedication...

Preface...

Table of Contents...

Contributing Authors...

Part I Molecular Basis of Colorectal Cancer

1 Cell Line Models of Molecular Subtypes of Colorectal Cancer

Jennifer Mooi, Ian Luk, and John Mariadason

2 Dissecting Oncogenic RTK Pathways in Colorectal Cancer Initiation and Progression

Stephen McManus, Walid Chababi, Dominique Arsenault, Claire M. Dubois, and Caroline Saucier

Salah Boudjadi, Julie C. Carrier, and Jean-Fran?ois Beaulieu

4 Identification and Functional Analysis of Gene Regulatory Sequences Interacting with Colorectal Tumor Suppressors

Katja Dahlgaard and Jesper Thorvald Troelsen

5 Methods for In Vivo Functional Studies of Chromatin-Modifying Enzymes in Early Steps of Colon Carcinogenesis

Martine Chevillard-Briet and Fabrice Escaffit

6 The Colorectal Cancer Microenvironment: Strategies for Studying the Role of Cancer Associated Fibroblasts

Rahul Bhome, Massimiliano Mellone, Katherine Emo, Gareth Thomas, Emre Sayan, and Alex H. Mirnezami

7 Methods for Assessing Apoptosis and Anoikis in Normal Intestine/Colon and Colorectal Cancer

Pierre H. Vachon

8 Molecular Analysis of the Microbiome in Colorectal Cancer

Fiona Clegg, Susan H. Berry, Richard Hansen and Georgina L. Hold

9 Proteomic Analysis of Colorectal Cancer Cells

Ana?s Chauvin and Fran?ois-Michel Boisvert

10 Autophagic Flux Assessment in Colorectal Cancer Cells

Annie Lauzier and Steve Jean

Part II New Developments in Colorectal Cancer Diagnostics and Screening

11 Classification of Colorectal Cancer in Molecular Subtypes by Immunohistochemistry

Sanne ten Hoorn, Anne Trinh, Joan de Jong, Lianne Koens, and Louis Vermeulen

12 Stool DNA Integrity Method for Colorectal Cancer Detection

Claudia Rengucci, Giulia De Maio, Maura Menghi, and Daniele Calistri

13 RT-qPCR for Fecal Mature microRNA Quantification and Validation

Farid E. Ahmed, Nancy C. Ahmed, Mostafa M. Gouda, Paul W. Vos, and Chris Bonnerup

14 A Stool Multi-Target mRNA Assay for the Detection of Colorectal Neoplasms

Elizabeth Herring, Shigeru Kanaoka, Eric Tremblay, and Jean-Fran?ois Beaulieu

15 Colorectal Cancer Detection Using Targeted LC-MS Metabolic Profiling

Danijel Djukovic, Jiangjiang Zhang, and Daniel Raftery

16 Proteomic Profiling for Colorectal Cancer Biomarker Discovery

Paula ?lvarez-Chaver, Loretta De Chiara, and Vicenta Soledad Mart?nez-Zorzano

17 Tumor-Derived Microparticles to Monitor Colorectal Cancer Evolution

Diane Mege, Laurence Panicot-Dubois, and Christophe Dubois

Part III Recent Advances in Colorectal Cancer Therapeutics

Patrick S. Lin and Thomas J. Semrad

19 Testing Cell-Based Immunotherapy for Colorectal Cancer

Jong Soon Kang, Yeo Dae Yoon, Myeong Youl Lee, Chang Woo Lee, Suk Jong Lee, and Sang-Bae Han

20 Patient-Derived Xenograft Models of Colorectal Cancer: Procedures for Engraftment and Propagation

Danielle M. Burgenske, David J. Monsma, and Jeffrey P. MacKeigan

21 Use of Organoids to Characterize Signaling Pathways in Cancer Initiation

Christina Oatway, Calley L. Hirsch, and Alex Gregorieff

22 Identification of Novel Molecules Targeting Cancer Stem Cells

Yannick D. Benoit