interface-LncCASE

interface-LncCASE identifies and characterizes long non-coding RNAs (lncRNAs) with copy number variations (CNVs) and links them to transcriptionally perturbed subpathways and cancer hallmarks across 14 cancer types.

Key Features:

• Identification of lncRNAs-CNV: A computational method that identifies lncRNAs with CNVs across 14 cancer types.
• Multidimensional omics integration: Integration of multidimensional omics data to uncover transcriptional perturbations within subpathways.
• Characterization of transcriptionally perturbed subpathways: Analysis of sub-regions of biological pathways affected by lncRNAs-CNVs to reveal core subpathways and widely perturbed cancer hallmarks.
• Prognostic biomarker identification: Survival analysis to identify potential prognostic biomarkers including ST7-AS1, CDKN2B-AS1, and EGFR-AS1.
• Functional crosstalk model: Construction of a model describing cascade responses and functional crosstalk among lncRNAs-CNVs, impacted genes, driving subpathways, and cancer hallmarks.

Scientific Applications:

• Investigation of non-coding variation in cancer: Linking lncRNA-CNVs to transcriptional and pathway perturbations to study their roles in tumorigenesis.
• Biomarker discovery and prognosis: Identification and prioritization of prognostic lncRNA biomarkers via survival analysis.
• Therapeutic target prioritization: Highlighting impacted genes and driving subpathways as potential targets for therapeutic investigation.
• Comparative cancer analysis: Characterizing functional diversity of lncRNA-CNV effects across 14 cancer types.

Methodology:

Integration of multidimensional omics data, a computational method to identify lncRNAs with CNVs across 14 cancer types, analysis of transcriptionally perturbed subpathways, survival analysis for prognostic biomarker detection, and construction of a functional crosstalk model.