A protocol for visual analysis of alternative splicing in RNA-Seq data using integrated genome browser.

ABSTRACT: Ultrahigh-throughput sequencing of cDNA (RNA-Seq) is an invaluable resource for investigating alternative splicing in an organism. Alternative splicing is a form of posttranscriptional regulation in which primary RNA transcripts from a single gene can be spliced in multiple ways leading to different RNA and protein products. In plants and other species, it has been shown that many genes involved in circadian regulation are alternatively spliced. As new RNA-Seq data sets become available, these data will lead to new insights into links between regulation RNA splicing and the circadian system. Analyzing RNA-Seq data sets requires software tools that can display RNA-Seq read alignments alongside gene models, enabling assessment of how treatments or developmental stages affect splicing pattern

SUBMITTER: Gulledge AA 

PROVIDER: S-EPMC4070736 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature