Alternative splicing allows genes to express isoforms with different coding or regulatory functions on demand. While short read deep sequencing technologies (RNA-seq) provide an immediate measurement of local splicing events, the phasing of these events along full-length isoforms requires the computational inference of long-range dependencies from short-range data points. We introduce CIDANE, a tool for the assembly and quantification of full-length isoforms from short read RNA-seq data. CIDANE bridges the gap between RNA quantification methods that rely on a complete annotation of a species’ transcriptome, and transcript assembly methods that will detect novel isoforms at the cost of a lower accuracy.
CITATION STYLE
Andreotti, S., & Canzar, S. (2019). Guided reconstruction of full-length isoforms from short reads by CIDANE. In Methods in Molecular Biology (Vol. 1870, pp. 199–208). Humana Press Inc. https://doi.org/10.1007/978-1-4939-8808-2_15
Mendeley helps you to discover research relevant for your work.