TimiRGeN: R/Bioconductor package for time series microRNA-mRNA integration and analysis.

ABSTRACT:

Motivation

The analysis of longitudinal datasets and construction of gene regulatory networks (GRNs) provide a valuable means to disentangle the complexity of microRNA (miRNA)-mRNA interactions. However, there are no computational tools that can integrate, conduct functional analysis and generate detailed networks from longitudinal miRNA-mRNA datasets.

Results

We present TimiRGeN, an R package that uses time point-based differential expression results to identify miRNA-mRNA interactions influencing signaling pathways of interest. miRNA-mRNA interactions can be visualized in R or exported to PathVisio or Cytoscape. The output can be used for hypothesis generation and directing in vitro or further in silico work such as GRN construction.

Availability and implementation

SUBMITTER: Patel K 

PROVIDER: S-EPMC8545325 | biostudies-literature | 2021 Oct

REPOSITORIES: biostudies-literature