Finding the optimal bayesian network given a constraint graph. - Jacob M. Schreiber; William S. Noble (PeerJ Prepr., 2017)

Avocado: Deep tensor factorization characterizes the human epigenome via imputation of tens of thousands of functional experiments. - Jacob M. Schreiber; Timothy J. Durham; William S. Noble; Jeffrey A. Bilmes (BCB, 2020)

Zero-shot imputations across species are enabled through joint modeling of human and mouse epigenomics. - Jacob M. Schreiber; Deepthi Hegde; William S. Noble (BCB, 2020)

apricot: Submodular selection for data summarization in Python. - Jacob M. Schreiber; Jeffrey A. Bilmes; William Stafford Noble (J. Mach. Learn. Res., 2020)

Latent Modeling of the Human Epigenome. - Jacob M. Schreiber (2020)

Prioritizing transcriptomic and epigenomic experiments using an optimization strategy that leverages imputed data. - Jacob M. Schreiber; Jeffrey A. Bilmes; William Stafford Noble (Bioinform., 2021)

fastISM: performantin silicosaturation mutagenesis for convolutional neural networks. - Surag Nair; Avanti Shrikumar; Jacob M. Schreiber; Anshul Kundaje (Bioinform., 2022)

Accelerating in silico saturation mutagenesis using compressed sensing. - Jacob M. Schreiber; Surag Nair; Akshay Balsubramani; Anshul Kundaje (Bioinform., 2022)

GENCODE: reference annotation for the human and mouse genomes in 2023. - Adam Frankish; Silvia Carbonell Sala; Mark Diekhans; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Carme Arnan; If Barnes; Abhimanyu Banerjee; Ruth Bennett; et al. (Nucleic Acids Res., 2023)