Breakthroughs in high-throughput genome sequencing and high-performance computing technologies have empowered scientists to decode many genomes including our own. Now they have a bigger ambition: to fully understand the vast diversity of microbial communities within us and around us, and to exploit their potential for the improvement of our health and environment. In this new field called metagenomics, microbial genomes are sequenced directly from the habitats without lab cultivation. Computational metagenomics, however, faces both a data challenge that deals with tens of tera-bases of sequences and an algorithmic one that deals with the complexity of thousands of species and their interactions.This interdisciplinary book is essential reading for those who are interested in beginning their own journey in computational metagenomics. It is a prism to look through various intricate computational metagenomics problems and unravel their three distinctive aspects: metagenomics, data engineering, and algorithms. Graduate students and advanced undergraduates from genomics science or computer science fields will find that the concepts explained in this book can serve as stepping stones for more advanced topics, while metagenomics practitioners and researchers from similar disciplines may use it to broaden their knowledge or identify new research targets.
Contents:
- Preface
- Acknowledgments
- Computational Metagenomics: A Metagenomics Perspective
- Computational Metagenomics: A Data Engineering Perspective
- Computational Metagenomics: An Algorithmic Perspective
- Hardware and Software Aspects for Scalable Analysis
- Metagenomics Data Quality Improvement
- Exploring Community Diversity: Taxonomical Analyses
- Functional Metagenomics: Gene and Pathway-Based Analyses
- Deconvolute Community Metagenome into Single Genomes
- Single Cell Metagenomics
- Interactions Between Microbes and Their Environment
- Bibliography
- Index
Readership: Graduate students and advanced undergraduates from genomics science or computer science fields, beginner researchers from similar disciplines.Computational Metagenomics;Metagenomics;Bioinformatics;Microbial Community;Big Data;Microbial Taxonomy;Metagenome Assembly;Metagenome Binning;Single Cell Metagenomics;Scalable Analysis00
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