Work

Identification and visualization of differential isoform expression in RNA-seq time series

Year: 2017

Type: article

Abstract: Motivation: As sequencing technologies improve their capacity to detect distinct transcripts of the same gene and to address complex experimental designs such as longitudinal studies, there is a need to develop statistical methods for the analysis of isoform expression changes in time series data. Results: Iso-maSigPro is a new functionality of the R package maSigPro for transcriptomics time series data analysis. Iso-maSigPro identifies genes with a differential isoform usage across time. The package also includes new clustering and visualization functions that allow grouping of genes with similar expression patterns at the isoform level, as well as those genes with a shift in major expressed isoform. Availability and implementation: The package is freely available under the LGPL license from the Bioconductor web site. Contact: [email protected] or [email protected]. Supplementary information: Supplementary data are available at Bioinformatics online.

Source: Bioinformatics

DOI: 10.1093/bioinformatics/btx578

Authors: María José Nueda, Jordi Martorell-Marugan, Cristina Martí, Sonia Tarazona, Ana Conesa

Institutions: University of Alicante, Centro de Investigacion Principe Felipe, Universitat Politècnica de València, University of Florida

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: hybrid

Estimated APC paid: $3,989

Funders: European Commission, Ministerio de Economía y Competitividad