Abstract
Abstract Cancer is caused by accumulated changes in a cell's DNA sequence that disrupt the regulation of genetic networks. Mutation type, cell of origin, and tissue microenvironment all influence the initiation and progression of disease. The Cancer Genome Atlas (TCGA) catalogues the molecular changes of thousands of tumor samples of various tumor types using different data modalities including genomic, transcriptomic, proteomic, and epigenomic views. The goal is to find similarities amongst cancers of different tissues and to reveal clinically-relevant subtypes sharing common molecular abnormalities. While various analyses for interpreting these rich datasets exist, few methods are available to enable intuitive global overviews of these rich compendia. There is a need for methods that can tap the statistical power of large cohorts, to aid in analysis of smaller cohorts and of individual patient samples. Patterns present in many tumors may reveal driving genomic aberrations and pathway signatures that inform therapy. Here, we present a TumorMap, a tool that generates a map of cancer samples for interactive exploration, data overlay visualization, and statistical analysis. TumorMap arranges samples on a hexagonal 2-dimensional grid based on sample similarity. Different maps can be made for each distinct platform of data. Herein we demonstrate the utility of TumorMap for revealing commonalities between cancers of different tissue types, and its ability to aid in pan-cancer hypothesis generation. TumorMap maps for various cancer cohorts are available for free online at http://tumormap.ucsc.edu. Citation Format: Yulia Newton, Adam Novak, Teresa Swatlowski, Sahil Chopra, Sofie Salama, Olena Morozova, David Haussler, Joshua Stuart. UCSC TumorMap: Exploring cancer signatures on an interactive dynamic landscape. [abstract]. In: Proceedings of the 107th Annual Meeting of the American Association for Cancer Research; 2016 Apr 16-20; New Orleans, LA. Philadelphia (PA): AACR; Cancer Res 2016;76(14 Suppl):Abstract nr LB-290.
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