MyomirDB

MyomirDB catalogs experimentally validated myomiRs and their miRNA–Transcription Factor–Target Gene co-regulatory networks to support analysis of molecular mechanisms underlying muscle atrophy.

Key Features:

• Curated myomiR dataset: Contains 247 myomiRs experimentally validated in the context of muscular atrophy.
• Tripartite regulons: Includes approximately 8,000 tripartite regulons (Feed Forward Loops, FFLs) associated with the curated myomiRs.
• Co-regulatory networks: Provides miRNA–Transcription Factor–Target Gene co-regulatory networks linking miRNAs, transcription factors, and target genes.
• Entry-level metadata: Records source organism, specific atrophic condition, experiment duration, expression levels, fold changes, tissue of expression, and experimental validation for each entry.
• Annotations and associations: Integrates disease and drug associations, tissue-specific expression data, Gene Ontology terms, and KEGG pathway links.
• Network extraction scripts: Uses in-house scripts to construct co-regulatory networks and extract tripartite regulons (FFLs).

Scientific Applications:

• Biomarker identification: Identification of potential diagnostic, therapeutic, and predictive markers related to muscular atrophy.
• Mechanistic inference: Elucidation of regulatory mechanisms of muscle atrophy through analysis of miRNA–TF–target gene networks and FFLs.
• Comparative analysis: Comparative study of atrophy-associated miRNAs, their networks, and FFL regulons across conditions.
• Functional interpretation: Mapping of miRNAs and targets to Gene Ontology terms and KEGG pathways for pathway-level interpretation.
• Disease–drug linkage: Exploration of associations between miRNAs, diseases, and drugs for translational research.

Methodology:

In-house scripts were used to construct miRNA–Transcription Factor–Target Gene co-regulatory networks and to extract tripartite regulons (Feed Forward Loops, FFLs).