Tracing cancer evolution and heterogeneity using Hi-C

We developed a new computational framework, HiDENSEC (Hi-C based Direct Estimation of Copy Number and Structural rEarrangements in Cancer cells), to estimate the fraction of cancer cells in mixed samples, infer absolute copy number over the genome, detect and ascribe copy number to large-scale structural variants (LSSVs) using proximity ligation sequencing data from formalin-fixed tumor samples (Fix-C).