ncRPheno

ncRPheno provides a curated database of experimentally supported noncoding RNA–disease associations across 11 species to support identification and prioritization of ncRNA biomarkers and disease-related research.

Key Features:

• Comprehensive Data Integration: Contains 482,751 non-redundant associations between 14,494 ncRNAs and 3,210 disease phenotypes across 11 species (Homo sapiens, Mus musculus, Rattus norvegicus, Macaca mulatta, Sus scrofa, Pan troglodytes, Marmoset, Gallus gallus, Canis familiaris, Zebrafish, and Rabbit) covering ncRNA classes including miRNA, lncRNA, circRNA, snoRNA, and piRNA with literature-supported evidence.
• Scoring Model for Association Prioritization: Employs a refined scoring model to prioritize ncRNA–disease associations based on evidential metrics.
• Programmatic Access (APIs): Provides programmatic access through APIs for integration into computational workflows.
• Case Study Insights: A case study across 22 cancer types identified 821 cancer-associated common ncRNAs.

Scientific Applications:

• ncRNA biomarker and drug-target discovery: Supports identification and prioritization of miRNA, lncRNA, circRNA, snoRNA, and piRNA as biomarkers and potential drug targets for diagnosis, therapy, and prognosis.
• Cross-species comparative analyses: Enables comparative studies of ncRNA–disease associations across 11 species including Homo sapiens, Mus musculus, and others.
• Integrative disease genomics: Facilitates integration with ontology and cancer genomics resources (ECO, EFO, GO, HPO, OMIM, TCGA, ICGC) for evidence-based studies of genetic disorders and complex diseases.

Methodology:

Integrates experimentally supported ncRNA–disease associations from literature and databases (ECO, EFO, GO, HPO, OMIM, TCGA, ICGC) across 11 species and applies a refined scoring model to prioritize associations while exposing data via APIs.