TSIS: An R package to infer alternative splicing isoform switches for time-series data

27Citations
Citations of this article
46Readers
Mendeley users who have this article in their library.

This article is free to access.

Abstract

An alternative splicing isoform switch is where a pair of transcript isoforms reverse their relative expression abundances in response to external or internal stimuli. Although computational methods are available to study differential alternative splicing, few tools for detection of isoform switches exist and these are based on pairwise comparisons. Here, we provide the TSIS R package, which is the first tool for detecting significant transcript isoform switches in time-series data. The main steps of TSIS are to search for the isoform switch points in the time-series, characterize the switches and filter the results with user input parameters. All the functions are integrated into a Shiny App for ease of implementation of the analysis.

Cite

CITATION STYLE

APA

Guo, W., Calixto, C. P. G., Brown, J. W. S., & Zhang, R. (2017). TSIS: An R package to infer alternative splicing isoform switches for time-series data. Bioinformatics, 33(20), 3308–3310. https://doi.org/10.1093/bioinformatics/btx411

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Save time finding and organizing research with Mendeley

Sign up for free