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bioRxiv · 10.1101/208660

Continuous Biomarker Assessment by Exhaustive Survival Analysis

Pearce, D. A.·Nirmal, A. J.·Freeman, T. C.·Sims, A. H.
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Abstract

Publicly available high-throughput molecular data can enable biomarker identification and evaluation in a meta-analysis. However, a continuous biomarkers underlying distribution and/or potential confounding factors associated with outcome will inevitably vary between cohorts and is often ignored. The survivALL R package (https://CRAN.R-project.org/package=survivALL) allows researchers to generate visual and numerical comparisons of all possible points-of-separation, enabling quantitative biomarkers to be reliably evaluated within and across datasets, independent of compositional variation. Here, we demonstrate survivALLs ability to robustly and reproducibly determine an applicable level of gene expression for patient prognostic classification, in datasets of similar and dissimilar compositions. We believe survivALL represents a significant improvement over existing methodologies in stratifying patients and determining quantitative biomarker(s) cut-points for public and novel datasets.

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Pearce, D. A., Nirmal, A. J., Freeman, T. C., Sims, A. H.. 2017-10-25. Continuous Biomarker Assessment by Exhaustive Survival Analysis. https://doi.org/10.1101/208660

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