Main description:

This volume details common experimental approaches in studies designed to illuminate various processes used to study cancer metabolism. Chapters are divided into three parts, the first part focuses on protocols commonly utilized in cancer metabolism studies, such as protocols comprising stable isotope labeling methods, protocols for studying glycolysis, gluconeogenesis and mitochondrial metabolism. The second part of the book describes methods used for generating hypotheses and identifying cancer markers, such as mass spectrometry- and NMR-based profiling tools. Last but not least, the third part is an overview of vital and actively researched topics in the field of cancer metabolism, as well as computational methodological approaches. 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 Metabolism: Methods and Protocols aims to be an essential compilation of protocols utilized in many laboratories.

Contents:

1 Metabolic Labeling of Cultured Mammalian Cells for Stable Isotope-Resolved Metabolomics: Practical Aspects of Tissue Culture and Sample Extraction

Daniel R. Crooks, Teresa W-M. Fan, and W. Marston Linehan

2 Imaging Cancer Metabolism with Positron Emission Tomography (PET)

Timothy H. Witney and David Y. Lewis

3 Radioluminescence microscopy - A Quantitative Method for Radioisotopic Imaging of Metabolic Fluxes in Living Cancer Cells

Debanti Sengupta and Guillem Pratx

4 Use of 13C315N1-Serine or 13C515N1-Methionine for Studying Methylation dynamics in Cancer Cell Metabolism and Epigenetics

Tong Zhang, Christiaan F. Labuschagne, Karen H. Vousden, and Oliver D. K. Maddocks

5 Measurement of Mitochondrial Membrane Potential with the Fluorescent Dye Tetramethylrhodamine Methyl Ester (TMRM)

Sarah Creed and Matthew McKenzie

6 Assessment of Stabilization and Activity of the HIFs Important for Hypoxia-induced Signalling in Cancer Cells

David Kung-Chun Chiu, Misty Shuo Zhang, Aki Pui-Wah Tse, and Carmen Chak-Lui Wong

7 Determination of Polarization of Resident Macrophages and their Effect on the Tumor Microenvironment

Ioannis S. Pateras and Tomer Cooks

8 Quantitation of Macropinocytosis in Cancer Cells

Koen M.O. Galenkamp, Basheer Alas, and Cosimo Commisso

9 Integrated Analysis of Acetyl-CoA and Histone Modification via Mass Spectrometry to Investigate Metabolically Driven Acetylation

Simone Sidoli, Sophie Trefely, Benjamin A. Garcia, and Alessandro Carrer

10 Methods to Measure Autophagy in Cancer Metabolism

Natalia Von Muhlinen

11 Lipidomic Analysis of Cancer Cell and Tumor Tissue

Sk Ramiz Islam and Soumen Kanti Manna

12 Mass Spectrometry-based Profiling of Metabolites in Human Biofluids

Tanushree Chakraborty and Soumen Kanti Manna

13 Gas Chromatography-Mass Spectrometry and Analysis of the Serum Metabolomic Profile through Extraction and Derivatization of Polar Metabolites

Jodi Rattner, Farshad Farshidfar, and Oliver F. Bathe

14 Metabolite Profiling of Clinical Cancer Biofluid Samples by NMR Spectroscopy

Beata Mickiewicz, M. Eric Hyndman and Hans J. Vogel

15 Assessment of Metabolic Signature for Cancer Diagnosis Using Desorption Electrospray Ionization Mass Spectrometric Imaging

Shibdas Banerjee and Soumen Kanti Manna

16 Compositional Analysis of the Human Microbiome in Cancer Research

Elisa Morales, Jun Chen, and K. Leigh Greathouse

17 Assessing Metabolic Dysregulation in Muscle During Cachexia

Myriam Y Hsu, Paolo E Porporato, and Elisabeth Wyart

18 Using Seahorse Machine to Measure OCR and ECAR in Cancer Cells

Jing Zhang and Qing Zhang

19 Metabolic Profiling of Live Cancer Tissues using NAD(P)H fluorescence Lifetime Imaging

Thomas S. Blacker, Michael D.E. Sewell, Gyorgy Szabadkai, and Michael R. Duchen

20 Overview of Characterizing Cancer Glycans with Lectin-based Analytical Methods

Amanda J. Pearson and Elyssia S. Gallagher

21 Hyperpolarized MRI for Studying Tumor Metabolism

Mikko I. Kettunen

22 Overview of Glutamine-Dependency and Metabolic Rescue Protocols

Shuo Qie, Dan He, and Nianli Sang

23 Integration of Metabolomics and Transcriptomics to Identify Gene-metabolite Relationships Specific to Phenotype

Andy Patt, Jalal Siddiqui, Bofei Zhang, and Ewy Mathe

24 Biclustering Analysis of Co-regulation Patterns in Nuclear Encoded Mitochondrial Genes and Metabolic Pathways

Robert B. Bentham, Kevin Bryson, and Gyorgy Szabadkai

25 Using the Human Genome-scale Metabolic Model Recon 2 for Steady-state Flux Analysis of Cancer Cell Metabolism

Lake-Ee Quek and Nigel Turner