CSim simulates the evolution of a cancer starting with one cancer cell which divides and acquires mutations through the process of unequal sister chromatid exchange. The simulation starts with one cell with one chromosome pair containing 16 genes each, four essential genes (E1 to E4), four neutral genes (N1 to N4), four oncogenes (O1 to O4) and four tumor suppressor genes (T1 to T4). The order of these genes on the chromosomes can be varied as well as the frequency of mutations, the maximum length of genes involved in USCE and the number of cell divisions. The simulation only considers the end result of reciprocal USCE where one chromatid loses and the sister chromatid gains a contiguous stretch of genetic material.
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