Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series.

ABSTRACT:

Motivation

The widespread adoption of RNA-seq to quantitatively measure gene expression has increased the scope of sequencing experimental designs to include time-course experiments. maSigPro is an R package specifically suited for the analysis of time-course gene expression data, which was developed originally for microarrays and hence was limited in its application to count data.

Results

We have updated maSigPro to support RNA-seq time series analysis by introducing generalized linear models in the algorithm to support the modeling of count data while maintaining the traditional functionalities of the package. We show a good performance of the maSigPro-GLM method in several simulated time-course scenarios and in a real experimental dataset.

Availability and implementati

SUBMITTER: Nueda MJ 

PROVIDER: S-EPMC4155246 | biostudies-literature | 2014 Sep

REPOSITORIES: biostudies-literature