2021
DECODE: a Deep-learning framework for Condensing enhancers and refining boundaries with large-scale functional assays
Chen Z, Zhang J, Liu J, Dai Y, Lee D, Min MR, Xu M, Gerstein M. DECODE: a Deep-learning framework for Condensing enhancers and refining boundaries with large-scale functional assays. Bioinformatics 2021, 37: i280-i288. PMID: 34252960, PMCID: PMC8275369, DOI: 10.1093/bioinformatics/btab283.Peer-Reviewed Original ResearchAnimalsDeep LearningEnhancer Elements, GeneticGenome-Wide Association StudyMiceNeural Networks, ComputerSoftware
2020
STARRPeaker: uniform processing and accurate identification of STARR-seq active regions
Lee D, Shi M, Moran J, Wall M, Zhang J, Liu J, Fitzgerald D, Kyono Y, Ma L, White KP, Gerstein M. STARRPeaker: uniform processing and accurate identification of STARR-seq active regions. Genome Biology 2020, 21: 298. PMID: 33292397, PMCID: PMC7722316, DOI: 10.1186/s13059-020-02194-x.Peer-Reviewed Original Research