LnCeVar

LnCeVar catalogs genomic variations that disrupt lncRNA-associated competing endogenous RNA (ceRNA) network regulation by integrating curated literature and high-throughput datasets to provide a repository of variation–ceRNA events for analysis.

Key Features:

• Extensive Data Curation: Contains 119,501 curated variation–ceRNA events, including more than 2,000 experimentally validated lncRNAs associated with circulating biomarkers, drug resistance, and prognostic indicators; 11,418 somatic mutation–ceRNA interactions from TCGA and COSMIC; 112,674 CNV–ceRNA events from TCGA; and 67,066 SNP–ceRNA interactions from the 1000 Genomes Project.
• Integrated Analytical Tools: Provides LnCeVar-BLAST for sequence-based ceRNA searches; LnCeVar-Function for functional enrichment analysis; LnCeVar-Hallmark for identification of dysregulated cancer hallmarks; LnCeVar-Survival for COX regression analyses and survival curve generation; and LnCeVar-Network for visualization of dysregulated ceRNA networks.

Scientific Applications:

• Biomarker and drug-resistance research: Supports analysis of lncRNA biomarkers, circulating biomarkers, and mechanisms of drug resistance via variation–ceRNA events.
• Cancer genomics and hallmark analysis: Enables identification and characterization of dysregulated cancer hallmarks associated with variation–ceRNA interactions.
• Survival and prognostic studies: Facilitates COX regression and survival-curve analyses linking variation–ceRNA interactions to clinical outcomes.
• Personalized medicine and therapeutic development: Provides variation–ceRNA data to inform investigations of targeted therapies and diagnostic strategies.

Methodology:

Data curation from published literature and high-throughput datasets with event collection from TCGA, COSMIC, and the 1000 Genomes Project, combined with sequence-based BLAST searches, functional enrichment, hallmark identification, COX regression and survival-curve analyses, and ceRNA network visualization.