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)

Matrix (factorization) reloaded: flexible methods for imputing genetic interactions with cross-species and side information. - Jason Fan; Xuan Cindy Li; Mark Crovella; Mark D. M. Leiserson (Bioinform., 2020)

Algorithmic approaches for investigating DNA Methylation in tumor evolution and heterogeneity. - Xuan Cindy Li (2024)