Machine Learning

Reconstructing the evolutionary history of tumors

Phylo* is a family of statistical methods that use nonparametric Bayesian tree priors to infer clonal evolution of tumors from whole genome sequencing data.


Amit G. Deshwar, Shankar Vembu, Christina K. Yung, Gun Ho Jang, Lincoln Stein, Quaid Morris. PhyloWGS: Reconstructing subclonal composition and evolution from whole genome sequencing of tumors. Genome Biology 16:35, 2015.


Amit G. Deshwar, Shankar Vembu, Quaid Morris. Comparing Nonparametric Bayesian Tree priors for clonal reconstruction of tumors. InProceedings of the Pacific Symposium on Biocomputing, 2015.


Wei Jiao, Shankar Vembu, Amit G. Deshwar, Lincoln Stein, Quaid Morris. Inferring clonal Evolution of tumors from single nucleotide Somatic Mutations. BMC Bioinformatics 15:35, 2014.