Joker de Bruijn: Sequence Libraries to Cover All k-mers Using Joker Characters. - Yaron Orenstein; Ryan Kim; Polly Fordyce; Bonnie Berger (RECOMB, 2017)

Discovering epistatic feature interactions from neural network models of regulatory DNA sequences. - Peyton Greenside; Tyler Shimko; Polly Fordyce; Anshul Kundaje (Bioinform., 2018)

DeCoDe: degenerate codon design for complete protein-coding DNA libraries. - Tyler Shimko; Polly Fordyce; Yaron Orenstein (Bioinform., 2020)