Additional file 1 of SVExpress: identifying gene features altered recurrently in expression with nearby structural variant breakpoints

Additional file 1. Data File S1: SV-expression integrative analysis results from the Cancer Cell Line Encyclopedia (CCLE). Provided are the complete set of gene-level correlations between expression and nearby somatic SV breakpoint in the 327 CCLE cell lines with WGS data, according to region examined (e.g., 0–100 kb upstream, 0–100 kb downstream, within the gene body, or 1 Mb upstream or downstream) and the regression model applied (with or without CNA correction). For the 1 Mb region window, relative gene distances of the breakpoints are weighted in the model. A separate tab provides the top genes for any region with FDR < 10% (correcting for CNA, with FDR by Story and Tibshirani method). Another tab provides the SVs associated with enhancer hijacking and gene over-expression. Another tab provides information on gene fusion predictions made by RNA-seq that also have support from WGS analysis of the 327 cell lines. Provided as an Excel file. (XLSX 9301 KB)