Nature research paper: Evolutionary histories of breast cancer and related clones
and 0.05) according to the binomial distribution determined by sequencing depth, total copy number and MCF, the mutation status was also assigned as ‘mutation_unknown’ and otherwise, the mutation status was assigned as ‘mutation_absent’.
At first, mutant allele number in a single mutant cell was calculated assuming an MCF of 100%, using the following formula:Next, adjusted TCN was determined as follows:Then, adjusted VAF was calculated by dividing MAN by aTCN.The resulting phylogenetic trees were drawn with the SNV number to infer the time course of clonal evolution by adapting the SNV accumulation rate estimated in single-cell-derived organoids.
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