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Pragmatic precision oncology: the secondary uses of clinical tumor molecular profiling

Matthew J Rioth1, Ramya Thota2, David B Staggs3

  • 1Department of Medicine, Division of Hematology & Oncology, Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, Nashville, TN, 37232 Department of Biomedical Informatics, Vanderbilt University, Nashville, TN, 37203 USA matthew.j.rioth@vanderbilt.edu.

Journal of the American Medical Informatics Association : JAMIA
|March 31, 2016
PubMed
Abstract

Insights

A new system automatically processes tumor molecular profiling data for precision oncology. This approach efficiently categorizes genetic variants, supporting patient treatment and research.

Area of Science:

  • Oncology
  • Bioinformatics
  • Genomics

Background:

  • Precision oncology relies on molecular tumor profiling for targeted therapy selection.
  • Molecular profiling data offers value for individual patient care and secondary research applications.

Purpose of the Study:

  • To develop a system for automated parsing, categorization, and aggregation of clinical molecular profile data.
  • To enable secondary use cases for this valuable cancer data.

Main Methods:

  • A system was developed to parse, categorize, and aggregate molecular profile data.
  • A naive Bayesian classifier was employed for categorizing results by clinical groups.
  • System accuracy was validated against an expert-curated dataset.

Main Results:

  • Over one year, 819 samples were processed, creating a repository of 10,620 genetic variants.
  • The data repository has been utilized for operational, clinical trial, and discovery research.
  • The system demonstrated accurate parsing and categorization of molecular data.

Conclusions:

  • A real-time database of molecular profiling data addresses knowledge management challenges in precision oncology.
  • This system facilitates efficient data utilization for clinical practice and scientific advancement.

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