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This volume provides an interdisciplinary perspective of applying Next Generation Sequencing (NGS) technology to cancer research. It aims to systematically introduce the concept of NGS, a variety of NGS platforms and their practical implications in cancer biology.This unique and comprehensive text will integrate the unprecedented NGS technology into various cancer research projects as opposed to most books which offer a detailed description of the technology. This volume will present true experimental results with concrete data processing pipelines, discuss the bottleneck of each platform for real project in cancer research. In additional, single cancer cell sequencing as the proof of concept will be introduced in this book, along with cutting-edge information provided will help the intended audience to develop a comprehensive understanding of the NGS technology and practical whole genome sequencing data analysis and rapidly translate into their own research, specifically in the field of cancer biology.
List of contents
Introduction: next generation sequencing technology and cancer research.- The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' unannotated RNA.- Total RNA-seq of breast cancer in hypoxia.- Altered antisense-to-sense transcript ratios in breast cancer.- Identification of piRNAs in Hela cells by massive parallel sequencing.- Discovery of new microRNAs by small RNAome deep sequencing in childhood acute lymphoblastic leukemia.- Whole-Exome Sequencing Identifies FAM20A Mutations as a Cause of Amelogenesis Imperfecta and Gingival Hyperplasia Syndrome.- Whole-exome sequencing in CIC and IDH1/2 contributing to human oligodendroglioma.- Genetic and structural variation in the gastric cancer kinome revealed through targeted deep sequencing.- Tumour evolution inferred by single-cell sequencing.- Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq.- Tracing the derivation of embryonic stem cells from the inner cell mass by single-cell RNASeq analysis.- Whole genome DNA methylation analysis based on high throughput sequencing technology.- Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors.- High-resolution genome-wide mapping of HIF-binding sites by ChIP-seq.- MicroRNA transfection and AGO-bound CLIP-seq data sets reveal distinct determinants of miRNA action.- Genome-wide identification of polycomb-associated RNAs by RIP-seq.- Single-molecule sequencing: sequence methods to enable accurate quantisation.- Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells.- Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA.- The genome information process for cancer research: the challenge and perspective.- Index.
About the author
Wei Wu, M.D., Ph.D. is a Research Associate for the Department of Bio Science at the University of Calgary, specializing in the cancer genome and systems biology. He has edited two volumes with Springer. In addition, he's a member of various editorial board for journals including the International Journal of Biomedical Sciences, International Journal of Molecular Medicine and Advances in Sciences and the Research Journal of Biological Sciences. Hani Choudhry, D.Phil is a member of the Genomics Research Group at the Wellcome Trust Centre for Human Genetics at Oxford University. His expertise is in high throughput next generation sequencing.
Summary
This volume provides an interdisciplinary perspective of applying Next Generation Sequencing (NGS) technology to cancer research. It aims to systematically introduce the concept of NGS, a variety of NGS platforms and their practical implications in cancer biology.This unique and comprehensive text will integrate the unprecedented NGS technology into various cancer research projects as opposed to most books which offer a detailed description of the technology. This volume will present true experimental results with concrete data processing pipelines, discuss the bottleneck of each platform for real project in cancer research. In additional, single cancer cell sequencing as the proof of concept will be introduced in this book, along with cutting-edge information provided will help the intended audience to develop a comprehensive understanding of the NGS technology and practical whole genome sequencing data analysis and rapidly translate into their own research, specifically in the field of cancer biology.
