lncExplore

lncExplore performs systematic functional annotation and pan-cancer analysis of long non-coding RNAs (lncRNAs) from RNA-sequencing data across 5034 TCGA RNA-seq datasets spanning 24 human cancers.

Key Features:

• Novel lncRNA Identification: Identifies novel lncRNAs using coding potential assessment and translation efficiency scores.
• Pan-Cancer Analysis: Performs pan-cancer analysis of aberrant lncRNA expression across 24 human cancers using 5034 TCGA RNA-seq datasets.
• Genomic Annotation: Provides genomic annotations for each lncRNA, including cis-regulatory information and gene ontology annotations.
• Regulatory Role Observation: Characterizes regulatory roles of lncRNAs as enhancer RNAs (eRNAs) and competing endogenous RNAs (ceRNAs).
• Biomarker Discovery: Integrates clinical information with disease specificity scores to support identification of potential lncRNA biomarkers for specific cancers.

Scientific Applications:

• Functional Annotation and Interpretation: Enables systematic functional annotation and interpretation of lncRNAs across multiple cancer types.
• Biomarker and Therapeutic Target Discovery: Supports identification of candidate diagnostic biomarkers and therapeutic targets among lncRNAs via expression and clinical integration.
• Comparative Pan-Cancer Studies: Facilitates comparative analyses of lncRNA expression and regulatory roles across 24 human cancers using TCGA RNA-seq data.

Methodology:

lncRNAs were identified from 5034 TCGA RNA-seq datasets across 24 human cancers, evaluated by coding potential and translation efficiency scores, and integrated with genomic annotations (cis-regulatory and gene ontology) and clinical information including disease specificity scores.