Bioinformatics: A Practical Guide to Next Generation Sequencing Data Analysis de Hamid D. Ismail

Bioinformatics: A Practical Guide to Next Generation Sequencing Data Analysis: Chapman & Hall/CRC Computational Biology Series

en Limba Engleză Paperback – 29 iun 2023

- The book discusses the recent techniques in NGS data analysis which is the most needed material by biologists (students and researchers) in the wake of numerous genomic projects and the trend toward genomic research. - The book includes both theory and practice for the NGS data analysis. So, readers will understand the concept and learn how to do the analysis using the most recent programs.

- The steps of application workflows are written in a manner that can be followed for related projects. - Each chapter includes worked examples with real data available on the NCBI databases. Programming codes and outputs are accompanied with explanation.

- The book content is suitable as teaching material for biology and bioinformatics students. Meets the requirements of a complete semester course on Sequencing Data Analysis Covers the latest applications for Next Generation Sequencing Covers data reprocessing, genome assembly, variant discovery, gene profiling, epigenetics, and metagenomics

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Specificații

ISBN-13: 9781032408910
ISBN-10: 103240891X
Pagini: 348
Ilustrații: 16 Tables, black and white; 73 Halftones, color; 96 Halftones, black and white; 73 Illustrations, color; 96 Illustrations, black and white
Dimensiuni: 178 x 254 x 25 mm
Greutate: 1.6 kg
Ediția:1
Editura: CRC Press
Colecția Chapman and Hall/CRC
Seria Chapman & Hall/CRC Computational Biology Series

Public țintă

Postgraduate, Professional, and Undergraduate Advanced

Notă biografică

Hamid D. Ismail received his M.Sc. and Ph.D. in computational science from North Carolina Agricultural and Technical State University (NC A&T), USA, and DVM and B.Sc. from the University of Khartoum, Sudan. He earned several professional certifications including SAS Advanced Programmer and SQL Expert Programmer. Currently he works as a post-doc scholar at Michigan Technological University and adjunct professor of Data Science and Bioinformatics at NC A&T State University. Hamid is a bioinformatician, biologist, data scientist, statistician, and machine learning specialist. He contributed widely to the field of bioinformatics by developing bioinformatics tools and methods for applications of machine learning on genomic data.

Cuprins

Sequencing and Raw Sequence Data Quality Control, Nucleic acids, Sequencing, Sequencing depth and read quality, FASTQ files, FASTQ read quality assessment, Preprocessing of the FASTQ reads, Mapping of sequence reads to the reference genomes, Introduction to sequence mapping, Read mapping, Read sequence alignment and aligners, Manipulating alignments in SAM/BAM files, Reference-guided genome assembly, De novo Genome Assembly, Introduction to De Novo genome assembly, Examples of De Novo assemblers, Genome Assembly Quality Assessment, Variant Discovery, Introduction to genetic variations, Variant calling programs, Visualizing variants, Variant annotation and prioritization, RNA-seq data analysis, Introduction to RNA-seq, RNA-seq data applications, RNA-seq data analysis workflow, Chromatin Immunoprecipitation sequencing, Introduction to chromatin immunoprecipitation, ChIP sequencing, ChIP-seq analysis workflow, Targeted Gene Metagenomic Data Analysis, Introduction to metagenomics, Analysis workflow, Data Analysis with QIIME2, Shotgun metagenomic data analysis, Introduction, Shotgun metagenomic analysis workflow

Descriere

This book contains the latest material in the subject, covering NGS applications and meeting the requirements of a complete semester course. This book provides both concept and practice to satisfy the exact need of researchers seeking to use NGS data reprocessing, genome assembly, variant discovery, gene profiling, epigenetics, and metagenomics.

Recenzii

Bioinformatics is a necessary text that will help researchers/students gain background knowledge and understand the usage of NCBI databases. It is well suited for audiences who do not have a bioinformatics background as it defines what genomic data is and the fundamentals of the sequence alignment. It also thoroughly explains how to use NCBI tools to retrieve the researchers' genomic data of interest.
-- Roshonda Jones, Senior Bioinformatics Scientist, Nom Nom

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