StRAP -- Stress Response Array Profiler for integrated analysis of cancer genomic data

Tuesday, October 09, 2012 — Poster Session I
1:00 p.m. – 3:00 p.m	Natcher Conference Center, Building 45	NCI	BIOINFO-9

Authors

• S Johnson
• B Issac
• S Zhao
• M Bisht
• O Celiku
• P Tofilon
• K Camphausen
• U Shankavaram

Abstract

The increasing availability and maturity of DNA microarray technology have led to an explosion of cancer profiling studies for identifying cancer biomarkers, and predicting treatment response. Uncovering complex relationships, however, requires compiling and efficiently querying data from various sources, and remains a challenging task. Moreover, while databases related to cancer exist, none, to our knowledge, focus on the effects of cellular stress in general, and ionizing radiation in particular. We have developed the (St)ress-(R)esponse (A)rray (P)rofiler -- an open-source, web-based resource for storage, profiling, visualization, and sharing of cancer genomic data. StRAP houses multi-cancer microarray data with major emphasis on radiotherapy studies, and takes a systems biology approach towards the integration, comparison, and cross-validation of multiple cancer profiling studies. For ease of access from researchers with limited bioinformatics expertise, the queries and visualizations are organized around three high-level concepts: genes, cell lines, and studies. We provide user-friendly and interactive visualization tools for querying data and displaying results. The querying capabilities enable interrogation of data in search of new predictions, such as genes that affect radiation response across cell lines, or cancer types. Future extensions will enable analysis of the impact of cellular stress on biological pathways, and interaction networks.

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