Chen K, Wong A, Troyanskaya O, Zhou J. A sequence-based global map of regulatory activity for deciphering human genetics. Nat Genet. 2022;54(7):940–949. PMCID: PMC9279145

Park C, Zhou J, Wong A, Chen K, Theesfeld C, Darnell R, Troyanskaya O. Genome-wide landscape of RNA-binding protein target site dysregulation reveals a major impact on psychiatric disorder risk. Nat Genet. 2021;53(2):166–173. PMCID: PMC7886016

Richter F, Morton S, Kim S, Kitaygorodsky A, Wasson L, Chen K, Zhou J, Qi H, Patel N, DePalma S, Parfenov M, Homsy J, Gorham J, Manheimer K, Velinder M, Farrell A, Marth G, Schadt E, Kaltman J, Newburger J, Giardini A, Goldmuntz E, Brueckner M, Kim R, Porter G, Bernstein D, Chung W, Srivastava D, Tristani-Firouzi M, Troyanskaya O, Dickel D, Shen Y, Seidman J, Seidman C, Gelb B. Genomic analyses implicate noncoding de novo variants in congenital heart disease. Nat Genet. 2020;52(8):769–777. PMCID: PMC7415662

Chen K, Cofer E, Zhou J, Troyanskaya O. Selene: a PyTorch-based deep learning library for sequence data. Nat Methods. 2019;16(4):315–318. PMCID: PMC7148117

Zhou J, Theesfeld C, Yao K, Chen K, Wong A, Troyanskaya O. Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk. Nat Genet. 2018;50(8):1171–1179. PMCID: PMC6094955