Data Analysis Pipeline for RNA-seq Experiments: From Differential Expression to Cryptic Splicing.

ABSTRACT: RNA sequencing (RNA-seq) is a high-throughput technology that provides unique insights into the transcriptome. It has a wide variety of applications in quantifying genes/isoforms and in detecting non-coding RNA, alternative splicing, and splice junctions. It is extremely important to comprehend the entire transcriptome for a thorough understanding of the cellular system. Several RNA-seq analysis pipelines have been proposed to date. However, no single analysis pipeline can capture dynamics of the entire transcriptome. Here, we compile and present a robust and commonly used analytical pipeline covering the entire spectrum of transcriptome analysis, including quality checks, alignment of reads, differential gene/transcript expression analysis, discovery of cryptic splicing events, and visual

SUBMITTER: Yalamanchili HK 

PROVIDER: S-EPMC6373869 | biostudies-literature | 2017 Sep

REPOSITORIES: biostudies-literature