Alterations in the pleomorphic liposarcoma genome.

*Genomic boundaries detected as peaks within regions of contiguous alteration are indented. †False discovery-corrected p-value. ‡RefSeq (hg17); in parentheses, human microRNAs. §Locus of alteration spanning known population CNV (see Methods), percent genomic coverage; in parentheses, mean sample count. #Unknown: ambiguous direction of copy-number variant. ∥Boundary spans multiple observed intragenic breakpoints. &TP53 is focally deleted (peak, chr17∶7501467–7574417), but high in analytical error on low-marker count segments. $Marginal evidence of germline alteration in only two normal samples. ˆNon-genic germline signal in six normal samples spanning only a fraction of the locus, terminating prior to genic content. Broad and focal alterations stratified by event type. The genetic element of interest is selected from the total genic content of an alteration if it has previously observed somatic mutations in cancer (COSMIC), known oncogenes or tumor suppressors (CGP), implication in pathways altered in liposarcoma, or novel genes of interest for further study [43], [62], [63].