MMRFBiolinks

MMRFBiolinks enables integrative analysis of Multiple Myeloma genomic datasets by accessing MMRF CoMMpass and NCI-GDC data to support genomic, survival, and treatment-response analyses.

Key Features:

• Data integration: Accesses datasets from the MMRF Researcher Gateway (CoMMpass) and the NCI-GDC Data Portal for multiple myeloma genomic analyses.
• TCGABiolink extension: Implements 13 additional functions extending TCGABiolink, comprising six functions for MMRF-RG data and seven functions for NCI-GDC data.
• Array-array intensity correlation: Supports array-array intensity correlation analyses for comparative genomic intensity assessment.
• Survival analysis: Performs Kaplan-Meier survival analysis and generates Kaplan-Meier survival curves.
• Treatment-response visualization: Produces response-to-treatment plots and Best Overall (BO) response correlation plots incorporating treatments, time, duration, and annotated genetic variants.
• Integrative genomic analysis: Facilitates integrative analyses to identify genes associated with survival outcomes stratified by treatment regimens.

Scientific Applications:

• Mechanistic investigation of multiple myeloma: Integrates CoMMpass and NCI-GDC genomic data to study genetic contributors to disease onset and progression.
• Survival biomarker discovery: Identifies genes associated with patient survival and treatment-specific outcomes using Kaplan-Meier analysis.
• Treatment-response assessment: Analyzes Best Overall (BO) response and correlates response metrics with treatments, timing, duration, and annotated genetic variants.

Methodology:

Implements array-array intensity correlation and Kaplan-Meier survival analysis as explicit computational methods.