Analysis and design of RNA sequencing experiments for identifying mRNA isoform regulation

ABSTRACT: Through alternative splicing, most human genes express multiple isoforms that may have distinct or even antagonistic functions. To infer isoform regulation based on data from high-throughput sequencing of cDNA fragments (RNA-Seq), we have developed MISO, a computational model that estimates the expression level of alternatively spliced exons and mRNA isoforms and provides intuitive measures of con?dence in these estimates. Incorporation of the length distribution of inserted cDNA fragments in paired-end RNA-Seq analysis in MISO enables dramatic improvements in estimation of alternative splicing levels relative to previous methods. We show that one lane of paired-end RNA-Seq data can provide far more information about splicing than two lanes of single-end data, depending critically on prope

ORGANISM(S): Homo sapiens

SUBMITTER: Eric Wang 

PROVIDER: E-GEOD-23694 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress