Shimmer: detection of genetic alterations in tumors using next-generation sequence data. - Nancy F. Hansen; Jared J. Gartner; Lan Mei; Yardena Samuels; James C. Mullikin (Bioinform., 2013)

PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem. - Erfan Sadeqi Azer; Farid Rashidi Mehrabadi; Salem Malikic; Xuan Cindy Li; Osnat Bartok; Kevin Litchfield; Ronen Levy; Yardena Samuels; Alejandro A. Schäffer; E. Michael Gertz; Chi-Ping Day; Eva Pérez-Guijarro; et al. (Bioinform., 2020)

A modular protein language modelling approach to immunogenicity prediction. - Hugh O'Brien; Max Salm; Laura T. Morton; Maciej Szukszto; Felix O'farrell; Charlotte Boulton; Laurence King; Supreet Kaur Bola; Pablo D. Becker; Andrew Craig; Morten Nielsen 001; Yardena Samuels; et al. (PLoS Comput. Biol., 2024)