TY - JOUR AU - McPherson, Andrew W. AU - Roth, Andrew AU - Ha, Gavin AU - Chauve, Cedric AU - Steif, Adi AU - de Souza, Camila P. E. AU - Eirew, Peter AU - Bouchard-Côté, Alexandre AU - Aparicio, Sam AU - Sahinalp, S. Cenk AU - Shah, Sohrab P. PY - 2017 DA - 2017/07/27 TI - ReMixT: clone-specific genomic structure estimation in cancer JO - Genome Biology SP - 140 VL - 18 IS - 1 AB - Somatic evolution of malignant cells produces tumors composed of multiple clonal populations, distinguished in part by rearrangements and copy number changes affecting chromosomal segments. Whole genome sequencing mixes the signals of sampled populations, diluting the signals of clone-specific aberrations, and complicating estimation of clone-specific genotypes. We introduce ReMixT, a method to unmix tumor and contaminating normal signals and jointly predict mixture proportions, clone-specific segment copy number, and clone specificity of breakpoints. ReMixT is free, open-source software and is available at http://bitbucket.org/dranew/remixt. SN - 1474-760X UR - https://doi.org/10.1186/s13059-017-1267-2 DO - 10.1186/s13059-017-1267-2 ID - McPherson2017 ER -