Introduction

SELECT is a computational methodology to identify mutual exclusive and co-occurrent interactions between functional alterations in cancer.

If you use this tool or data, please cite:

Mina M., Raynaud F., Tavernari D., Battistello E., Sungalee S., Saghafinia S., Laessle T., Sanchez-Vega F., Schultz N., Oricchio E., Ciriello G. (2017) Conditional Selection of Genomic Alterations Dictates Cancer Evolution and Oncogenic Dependencies. Cancer Cell, 32(2), 155-168

TCGA Pancan23 GAM

The Cancer Genome Atlas (TCGA) Pancan23 Genomic Alteration Matrix (GAM) is a binary representation of the occurrences of 505 Selected Functional Events (SFEs) across 6456 samples from 23 different tumor types. All data come from the TCGA Consortium.

Download

select_1.0.tar.gz

The R implementation of SELECT algorithm.


pancan23_dataset.zip

The Pancan23 dataset in R data file format and an example script to run Select on the Pancan23 dataset.


pancan23_select_results.RData

SELECT analysis of the Pancan23 dataset. The full set of pairwise interactions is included in this file.

Documentation

Soon to appear. Please refer to the help pages in the R package.