Publications
] . Template-based mapping of dynamic motifs in tissue morphogenesis. PLoS Comput Biol. 2020 ;16(8):e1008049.
. Uniform intensity in multifocal microscopy using a spatial light modulator. PLoS One. 2020 ;15(3):e0230217.
. Accurate genome-wide predictions of spatio-temporal gene expression during embryonic development. PLoS Genet. 2019 ;15(9):e1008382.
. CaImAn an open source tool for scalable calcium imaging data analysis. Elife. 2019 ;8.
. Fast animal pose estimation using deep neural networks. Nat Methods. 2019 ;16(1):117-125.
. A Likelihood-Free Estimator of Population Structure Bridging Admixture Models and Principal Components Analysis. Genetics. 2019 ;212(4):1009-1029.
. Revealing evolutionary constraints on proteins through sequence analysis. PLoS Comput Biol. 2019 ;15(4):e1007010.
. Selene: a PyTorch-based deep learning library for sequence data. Nat Methods. 2019 ;16(4):315-318.
. Whole-genome deep-learning analysis identifies contribution of noncoding mutations to autism risk. Nat Genet. 2019 ;51(6):973-980.
. Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk. Nat Genet. 2018 ;50(8):1171-1179.
. Interpretation of an individual functional genomics experiment guided by massive public data. Nat Methods. 2018 ;15(12):1049-1052.
. Automatically tracking neurons in a moving and deforming brain. PLoS Comput Biol. 2017 ;13(5):e1005517.
. Collective Behavior of Place and Non-place Neurons in the Hippocampal Network. Neuron. 2017 ;96(5):1178-1191.e4.
. Domain prediction with probabilistic directional context. Bioinformatics. 2017 ;33(16):2471-2478.
. Metabolite Spectral Accuracy on Orbitraps. Anal Chem. 2017 ;89(11):5940-5948.
. Network-Based Coverage of Mutational Profiles Reveals Cancer Genes. Cell Syst. 2017 ;5(3):221-229.e4.
. Volumetric two-photon imaging of neurons using stereoscopy (vTwINS). Nat Methods. 2017 ;14(4):420-426.
. Analysis of Longitudinal Outcome Data with Missing Values in Total Knee Arthroplasty. J Arthroplasty. 2016 ;31(1):81-6.
. Biophysical Measurements of Bacterial Cell Shape. Methods Mol Biol. 2016 ;1440:227-45.
. Inferring interaction partners from protein sequences. Proc Natl Acad Sci U S A. 2016 ;113(43):12180-12185.
. Predictability and hierarchy in Drosophila behavior. Proc Natl Acad Sci U S A. 2016 ;113(42):11943-11948.
. Probabilistic models of genetic variation in structured populations applied to global human studies. Bioinformatics. 2016 ;32(5):713-21.
. Rapid construction of a whole-genome transposon insertion collection for Shewanella oneidensis by Knockout Sudoku. Nat Commun. 2016 ;7:13270.
. Recurrent Network Models of Sequence Generation and Memory. Neuron. 2016 ;90(1):128-42.
. Scaling probabilistic models of genetic variation to millions of humans. Nat Genet. 2016 ;48(12):1587-1590.