multiMiR

multiMiR provides integrated predicted and validated microRNA (miRNA)–target interaction data and analysis functions in R to support investigation of miRNA regulatory roles, disease associations, and drug responses.

Key Features:

• R package implementation: Implemented as an R package providing programmatic access to integrated miRNA–target interaction data.
• Database compilation: Compiles nearly 50 million records of miRNA–target interactions from 14 distinct databases.
• Species coverage: Includes interaction data for human and mouse.
• Data types integrated: Integrates both predicted and experimentally validated miRNA–target interactions.
• Disease and drug annotations: Incorporates annotations linking miRNAs to disease associations and drug responses.
• Customizable prediction cutoffs: Allows users to define cutoffs for predicted binding strength to filter interactions.
• Large-scale data handling and analysis: Provides functions for importing, manipulating, tabulating, graphing, and performing statistical analyses on large datasets within R.

Scientific Applications:

• Mouse models of alcohol consumption: Analysis of miRNA roles in mouse models of alcohol consumption.
• Human COPD studies: Investigation of miRNA involvement in chronic obstructive pulmonary disease (COPD) in human subjects.
• Bladder cancer metastasis models: Study of miRNA regulation in human cell line models of bladder cancer metastasis.

Methodology:

Aggregates and integrates predicted and validated miRNA–target interaction records from 14 databases into a single R package (compiling nearly 50 million human and mouse interactions) and provides functions for filtering by predicted binding strength and for importing, manipulating, tabulating, graphing, and performing statistical analyses in R.