DIANA-LNCBase

DIANA-LNCBase provides a database of experimentally supported and in silico predicted microRNA (miRNA) interactions with long non-coding RNAs (lncRNAs) to enable analysis of post-transcriptional gene regulation across human and mouse.

Key Features:

• Extensive Interaction Database: Encompasses over 70,000 low- and high-throughput direct and indirect miRNA:lncRNA interactions derived from manual curation and analysis of 153 AGO CLIP-Seq libraries, representing a 14-fold increase in experimental data versus the predecessor.
• In Silico Predictions: Contains millions of DIANA-microT predicted miRNA binding sites on lncRNAs with associated metadata and MRE (miRNA Recognition Element) conservation metrics.
• Cell Type Specificity: Provides cell type-specific miRNA:lncRNA regulation across 66 cell types spanning 36 tissues in human and mouse.
• Comprehensive Annotation: Integrates transcriptome-wide annotations and high-throughput datasets including HITS-CLIP and PAR-CLIP, supporting over 5,000 experimentally verified interactions and more than 10 million computationally predicted interactions.
• Detailed Interaction Information: Reports external identifiers and links, genomic location plots, binding site representations, lncRNA tissue expression data, and MRE conservation and prediction scores for each miRNA–lncRNA pair.

Scientific Applications:

• Regulatory network analysis: Elucidates miRNA:lncRNA interactions to characterize post-transcriptional regulatory networks.
• Disease research: Supports investigation of physiological and pathological roles of lncRNAs and miRNAs in disease contexts.
• Target discovery: Enables identification of candidate therapeutic targets by combining experimentally verified and computationally predicted miRNA:lncRNA interactions.

Methodology:

Manual curation of publications, analysis of 153 AGO CLIP-Seq libraries, DIANA-microT in silico predictions with MRE conservation metrics, and integration of HITS-CLIP and PAR-CLIP high-throughput datasets.