Transcriptomics

Dataset Information

237

Targeted RNA sequencing for gene discovery and quantification


ABSTRACT: Due to the large size, complex splicing and wide dynamic range of eukaryotic transcriptomes, RNA sequencing samples the majority of expressed genes infrequently, resulting in sparse sequencing coverage that can hinder robust isoform assembly and quantification. Targeted RNA sequencing addresses this challenge by using oligonucleotide probes to capture selected genes or regions of interest for focused sequencing. This enhanced sequencing coverage confers sensitive gene discovery, robust transcript assembly and accurate gene quantification. Here we describe a detailed protocol for all stages of targeted RNA sequencing, from initial probe design considerations, capture of targeted genes, to final assembly and quantification of captured transcripts. Initial probe design and final analysis can take less than a day, while the central experimental capture stage requires ~7 days. Targetted RNA sequencing of long noncoding RNAs

ORGANISM(S): Homo sapiens  

SUBMITTER: Tim R Mercer   Tim R. Mercer 

PROVIDER: E-GEOD-52503 | ArrayExpress | 2014-03-01

SECONDARY ACCESSION(S): SRP033124GSE52503PRJNA229130

REPOSITORIES: GEO, ArrayExpress, ENA

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