RNA-Seq in Drug Discovery and Development

Cover -- Half Title -- Series Page -- Title Page -- Copyright Page -- Table of Contents -- Preface -- Editors -- Contributors -- Chapter 1 Introduction to RNA Sequencing and Quality Control -- 1.1 What is RNA Sequencing? -- 1.1.1 What is RNA? -- 1.1.2 What is RNA-seq? -- 1.2 cDNA Library Preparation in RNA-seq -- 1.2.1 Isolation of the RNA and RNA Quality Check -- 1.2.2 Selection and Depletion of Particular RNA -- 1.2.3 Fragmentation -- 1.2.4 Reverse Transcription to Generate cDNA and Adaptor Sequences -- 1.2.5 Single-End and Paired-End Sequencing Technique -- 1.3 RNA-seq Techniques and Platforms -- 1.3.1 Roche 454 -- 1.3.2 Illumina Platform -- 1.3.3 Small-Scale RNA-seq Platform -- 1.3.4 Third-Generation Sequencing -- 1.4 RNA-seq File Format -- 1.4.1 Output File: FASTQ File -- 1.4.2 Mapped File: SAM/BAM/BIGWIG Formats -- 1.4.3 GTF File -- 1.4.4 BED File -- 1.5 Quality Control of RNA-seq Data -- 1.5.1 Basic Usage of the Public Server Galaxy -- 1.5.2 FastQC Program -- 1.5.3 Trimmomatic Tool for Adapter Trimming -- 1.6 Advantages of RNA-seq Over Expression Microarrays -- 1.7 Summary -- Keywords and Phrases -- Bibliography -- Chapter 2 Read Alignment and Transcriptome Assembly -- 2.1 Transcriptome Assembly Methodology -- 2.2 Genome-Guided Assembly -- 2.2.1 Unspliced Aligners: Burrows-Wheeler Transform (BWT) -- 2.2.1.1 BWT Method -- 2.2.1.2 EXACTMATCH Method -- 2.2.2 Unspliced Aligners: Seed Methods -- 2.2.3 Spliced Aligners: TopHat -- 2.2.4 Spliced Aligners: HISAT2 -- 2.2.5 Spliced Aligners: STAR -- 2.3 De Novo Assembly -- 2.3.1 Trinity Package -- 2.4 Summary -- Keywords and Phrases -- Bibliography -- Chapter 3 Normalization and Downstream Analyses -- 3.1 Quantification of Transcript Abundance -- 3.2 Raw Counts Extraction -- 3.2.1 Rsubread and Featurecounts -- 3.3 Normalization Methods -- 3.4 Differential Gene Expression Analysis -- 3.4.1 DESeq2..

Medienart:	E-Book

Erscheinungsjahr:	2023 ©2023
Erschienen:	Milton: Taylor & Francis Group ; 2023 ©2023

Weitere Ausgaben:	Erscheint auch als Druck-Ausgabe: RNA-seq in drug discovery and development

Reihe:	Drugs and the Pharmaceutical Sciences Series

Sprache:	Englisch

Beteiligte Personen:	Cheng, Feng, 1986- [HerausgeberIn] Morris, Robert [HerausgeberIn]

Links:	ebookcentral.proquest.com [lizenzpflichtig]

ISBN:	978-1-000-91825-0

Themen:	Drug development Electronic books

RVK:	RVK Klassifikation WD 5355

Anmerkungen:	Description based on publisher supplied metadata and other sources

Umfang:	1 Online-Ressource (279 Seiten)

Förderinstitution / Projekttitel:

PPN (Katalog-ID):	1851940693