BookAlessandro Laganà, editor.
Summary: Precision medicine holds great promise for the treatment of cancer and represents a unique opportunity for accelerated development and application of novel and repurposed therapeutic approaches. Current studies and clinical trials demonstrate the benefits of genomic profiling for patients whose cancer is driven by specific, targetable alterations. However, precision oncologists continue to be challenged by the widespread heterogeneity of cancer genomes and drug responses in designing personalized treatments. Chapters provide a comprehensive overview of the computational approaches, methods, and tools that enable precision oncology, as well as related biological concepts. Covered topics include genome sequencing, the architecture of a precision oncology workflow, and introduces cutting-edge research topics in the field of precision oncology. This book is intended for computational biologists, bioinformaticians, biostatisticians and computational pathologists working in precision oncology and related fields, including cancer genomics, systems biology, and immuno-oncology.
Contents:
Part One: Basic Concepts in Precision Oncology
Chapter 1. Design and Implementation of a precision oncology workflow
Chapter 2. An overview of cancer genome sequencing
Chapter 3. Software infrastructures for precision medicine workflows
Part Two: Current Computational Methods and Tools in Precision Oncology
Chapter 4. Somatic and germline variant calling from next-generation sequencing data
Chapter 5. Identification of copy number alterations from next-generation sequencing data
Chapter 6. Genome-wide discovery of large-scale structural variants from next-generation sequencing data
Chapter 7. Assessment of microsatellite instability from next-generation sequencing data
Chapter 8. Computational approaches for the investigation of intra-tumor heterogeneity and clonal evolution from bulk sequencing data
Chapter 9. Analysis of the transcriptome for precision oncology applications
Chapter 10. Computational methods for drug repurposing
Chapter 11. Pathway for analysis for precision oncology applications
Chapter 12. Identification of fusion transcripts from RNA-seq
Chapter 13. Computational resources for the interpretation of variations in cancer
Chapter 14. Analysis of electronic health records for precision oncology
Chapter 15. Network approaches for precision oncology
Chapter 16. Experimental validation of genomic alterations
Part Three: Advanced Concepts - The Future of Precision Oncology
Chapter 17. Molecular profiling of liquid biopsies for precision oncology
Chapter 18. Artificial intelligence for precision oncology
Chapter 19. Single-cell technologies in precision oncology
Chapter 20. Computational approaches for precision immuno-oncology
Chapter 21. Multi-pmics profiling of the tumor microenvironment
Chapter 22. Epigenetic and precision oncology
Chapter 23. Next generation knowledge bases to support precision oncology.