4.8 Article

Assessing the clinical utility of cancer genomic and proteomic data across tumor types

Journal

NATURE BIOTECHNOLOGY
Volume 32, Issue 7, Pages 644-+

Publisher

NATURE PUBLISHING GROUP
DOI: 10.1038/nbt.2940

Keywords

-

Funding

  1. National Institutes of Health [CA143883, CA175486, CA016672]
  2. UTMDACC - G.S. Hogan Gastrointestinal Research Fund
  3. NCI-MDACC Uterine SPORE career development award
  4. Lorraine Dell Program in Bioinformatics for Personalization of Cancer Medicine
  5. Dana-Farber Leadership Council
  6. Conquer Cancer Foundation

Ask authors/readers for more resources

Molecular profiling of tumors promises to advance the clinical management of cancer, but the benefits of integrating molecular data with traditional clinical variables have not been systematically studied. Here we retrospectively predict patient survival using diverse molecular data (somatic copy-number alteration, DNA methylation and mRNA, microRNA and protein expression) from 953 samples of four cancer types from The Cancer Genome Atlas project. We find that incorporating molecular data with clinical variables yields statistically significantly improved predictions (FDR < 0.05) for three cancers but those quantitative gains were limited (2.2-23.9%). Additional analyses revealed little predictive power across tumor types except for one case. In clinically relevant genes, we identified 10,281 somatic alterations across 12 cancer types in 2,928 of 3,277 patients (89.4%), many of which would not be revealed in single-tumor analyses. Our study provides a starting point and resources, including an open-access model evaluation platform, for building reliable prognostic and therapeutic strategies that incorporate molecular data.

Authors

I am an author on this paper
Click your name to claim this paper and add it to your profile.

Reviews

Primary Rating

4.8
Not enough ratings

Secondary Ratings

Novelty
-
Significance
-
Scientific rigor
-
Rate this paper

Recommended

No Data Available
No Data Available