Thurin M., Cesano A., Marincola F.M. (eds.) Biomarkers for Immunotherapy of Cancer: Methods and Protocols

Humana Press, 2019. — 730 p. — (Methods in Molecular Biology 2055) — ISBN: 978-1-4939-9772-5This book provides the immune oncology (IO) community with a deeper understanding of the scope of the biomarker methods to potentially improve the outcome from immunotherapy. The editors secured the input from experts in the field dedicated to translating scientific research from bench to bedside was submitted. The book provides not only details about the technical, standardization and interpretation aspects of the methods but also introduces the reader to the background information and scientific justification for selected biomarkers and assays. 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.Scientific Questions and the Status of Inhibitory Receptors for Immunotherapy
Status of Immune Oncology: Challenges and Opportunities
Immunological Targets for Immunotherapy: Inhibitory T Cell Receptors
Mutational and Germline Profiling
Measuring Tumor Mutational Burden Using Whole-Exome Sequencing
Germline Genetics in Immuno-oncology: From Genome-Wide to Targeted Biomarker Strategies
Detection of Microsatellite Instability Biomarkers via Next-Generation Sequencing
Genetic Instability Markers in Cancer
Validation of Circulating Tumor DNA Assays for Detection of Metastatic Melanoma
Techniques Associated with Exosome Isolation for Biomarker Development: Liquid Biopsies for Ovarian Cancer Detection
Epigenetic Profiling
Identifying MicroRNA Pathway Variants as Biomarkers of Patient Selection for Immune Therapy
Histone Modifications as Biomarkers for Immunotherapy
Functional Genomic Profiling
Functional Genome Profiling to Understand Cancer Immune Responsiveness
Using RNA Sequencing to Characterize the Tumor Microenvironment
Development of Gene Expression-Based Biomarkers on the nCounter Platform for Immuno-Oncology Applications
The CRISPR System and Cancer Immunotherapy Biomarkers
Phenotyping of Tumor and Immune Cells
HLA Class I Antigen Processing Machinery Defects in Cancer Cells—Frequency, Functional Significance, and Clinical Relevance with Special Emphasis on Their Role in T Cell-Based Immunotherapy of Malignant Disease
High-Parameter Immune Profiling with CyTOF
The Adaptome as Biomarker for Assessing Cancer Immunity and Immunotherapy
Single-Molecule Arrays for Ultrasensitive Detection of Blood-Based Biomarkers for Immunotherapy
Single-Cell Multiplexed Proteomics on the IsoLight Resolves Cellular Functional Heterogeneity to Reveal Clinical Responses of Cancer Patients to Immunotherapies
Methods to Detect Immunogenic Cell Death In Vivo
Tissue Imaging Methods
Overview of Tissue Imaging Methods
Multiplex Immunofluorescence Assays
Multiplexed Immunohistochemical Consecutive Staining on Single Slide (MICSSS): Multiplexed Chromogenic IHC Assay for High-Dimensional Tissue Analysis
Cyclic Multiplexed-Immunofluorescence (cmIF), a Highly Multiplexed Method for Single-Cell Analysis
High-Plex Spatially Resolved RNA and Protein Detection Using Digital Spatial Profiling: A Technology Designed for Immuno-oncology Biomarker Discovery and Translational Research
The InSituPlex Staining Method for Multiplexed Immunofluorescence Cell Phenotyping and Spatial Profiling of Tumor FFPE Samples
Microbiome
Microbiome as an Immunological Modifier
System Biology for Multi-platform Data Integration
Systems Biology for Multiplatform Data Integration: An Overview
Bioinformatics Tools and Resources for Cancer Immunotherapy Study
Multiplatform Integrative Analysis of Immunogenomic Data for Biomarker Discovery
Regulatory Perspective
Translating Immuno-oncology Biomarkers to Diagnostic Tests: A Regulatory Perspective