A web-based system that allows for the analysis of Affymetrix GeneChip microarrays by using a parallel version of dChip. The user is first enabled to select pre-loaded datasets or single samples thereof, as well as single genes or lists of genes. Expression values of selected genes are then correlated with sample annotation data by uni- or multi-variate Cox regression and survival analyses. Survival Online can be used by bio-medical researchers without specific computation skills to validate potential biomarkers or multi-gene classifiers. The design of the service, the parallelization of pre-processing tasks and the implementation on an HPC (high performance computing) environment make this system a useful tool for validation on several independent datasets.
University of Genoa, Department of Communication, Computer and System Sciences, Genoa, Italy; National Research Council, Institute of Electronics and Engineering of Information and Telecommunications, Genoa, Italy; National Cancer Research Institute, Bioinformatics group, Genoa, Italy; National Cancer Research Institute, Functional Genomics, Genoa, Italy
Survival Online funding source(s)
This work has been partially funded by the Italian Ministry of University and Research "FIRB 2003" grant for the time frame 2005 – 2010 "LITBIO – Laboratory for Interdisciplinary Technologies in Bioinformatics" and by a grant from the Italian Ministry of Health.