A Randomized Parallel Algorithm for Efficiently Finding Near-Optimal Universal Hitting Sets. - Baris Ekim; Bonnie Berger; Yaron Orenstein (RECOMB, 2020)

ralphi: A Deep Reinforcement Learning Framework for Haplotype Assembly. - Enzo Battistella; Anant Maheshwari; Baris Ekim; Bonnie Berger; Victoria Popic (RECOMB, 2025)