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Author Title [ Year(Desc)]
Filters: Keyword is Computer Simulation  [Clear All Filters]
2003
Brody CD, Hopfield JJ. Simple networks for spike-timing-based computation, with application to olfactory processing. Neuron. 2003 ;37(5):843-52.
2005
Machens CK, Romo R, Brody CD. Flexible control of mutual inhibition: a neural model of two-interval discrimination. Science. 2005 ;307(5712):1121-4.
2014
Aronov D, Tank DW. Engagement of neural circuits underlying 2D spatial navigation in a rodent virtual reality system. Neuron. 2014 ;84(2):442-56.
Chen EY, Chou J, Park J, Schwartz G, Berry MJ. The neural circuit mechanisms underlying the retinal response to motion reversal. J Neurosci. 2014 ;34(47):15557-75.
2015
Berezhkovskii AM, Shvartsman SY. Dynamics of gradient formation by intracellular shuttling. J Chem Phys. 2015 ;143(7):074116.
Borenstein DBruce, Ringel P, Basler M, Wingreen NS. Established Microbial Colonies Can Survive Type VI Secretion Assault. PLoS Comput Biol. 2015 ;11(10):e1004520.
Murisic N, Hakim V, Kevrekidis IG, Shvartsman SY, Audoly B. From discrete to continuum models of three-dimensional deformations in epithelial sheets. Biophys J. 2015 ;109(1):154-63.
Marre O, Botella-Soler V, Simmons KD, Mora T, Tkačik G, Berry MJ. High Accuracy Decoding of Dynamical Motion from a Large Retinal Population. PLoS Comput Biol. 2015 ;11(7):e1004304.
Chung NChristophe, Storey JD. Statistical significance of variables driving systematic variation in high-dimensional data. Bioinformatics. 2015 ;31(4):545-54.
Song M, Hao W, Storey JD. Testing for genetic associations in arbitrarily structured populations. Nat Genet. 2015 ;47(5):550-4.
2016
Robinson JL, Brynildsen MP. Discovery and dissection of metabolic oscillations in the microaerobic nitric oxide response network of Escherichia coli. Proc Natl Acad Sci U S A. 2016 ;113(12):E1757-66.
Prentice JS, Marre O, Ioffe ML, Loback AR, Tkačik G, Berry MJ. Error-Robust Modes of the Retinal Population Code. PLoS Comput Biol. 2016 ;12(11):e1005148.
He B, Martin A, Wieschaus E. Flow-dependent myosin recruitment during Drosophila cellularization requires zygotic dunk activity. Development. 2016 ;143(13):2417-30.
Schumer M, Cui R, Rosenthal GG, Andolfatto P. simMSG: an experimental design tool for high-throughput genotyping of hybrids. Mol Ecol Resour. 2016 ;16(1):183-92.
Snir S, vonHoldt BM, Pellegrini M. A Statistical Framework to Identify Deviation from Time Linearity in Epigenetic Aging. PLoS Comput Biol. 2016 ;12(11):e1005183.
2017
Siedlik MJ, Manivannan S, Kevrekidis IG, Nelson CM. Cell Division Induces and Switches Coherent Angular Motion within Bounded Cellular Collectives. Biophys J. 2017 ;112(11):2419-2427.
Varner VD, Nelson CM. Computational models of airway branching morphogenesis. Semin Cell Dev Biol. 2017 ;67:170-176.
Nerger BA, Siedlik MJ, Nelson CM. Microfabricated tissues for investigating traction forces involved in cell migration and tissue morphogenesis. Cell Mol Life Sci. 2017 ;74(10):1819-1834.
Nofal M, Zhang K, Han S, Rabinowitz JD. mTOR Inhibition Restores Amino Acid Balance in Cells Dependent on Catabolism of Extracellular Protein. Mol Cell. 2017 ;67(6):936-946.e5.
Hristov BH, Singh M. Network-Based Coverage of Mutational Profiles Reveals Cancer Genes. Cell Syst. 2017 ;5(3):221-229.e4.
Piet AT, Erlich JC, Kopec CD, Brody CD. Rat Prefrontal Cortex Inactivations during Decision Making Are Explained by Bistable Attractor Dynamics. Neural Comput. 2017 ;29(11):2861-2886.
Tanaka H, Stone HA, Nelson DR. Spatial gene drives and pushed genetic waves. Proc Natl Acad Sci U S A. 2017 ;114(32):8452-8457.
Wilson MZ, Ravindran PT, Lim WA, Toettcher JE. Tracing Information Flow from Erk to Target Gene Induction Reveals Mechanisms of Dynamic and Combinatorial Control. Mol Cell. 2017 ;67(5):757-769.e5.
2018
Zhou J, Theesfeld CL, Yao K, Chen KM, Wong AK, Troyanskaya OG. Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk. Nat Genet. 2018 ;50(8):1171-1179.
Dine E, Gil AA, Uribe G, Brangwynne CP, Toettcher JE. Protein Phase Separation Provides Long-Term Memory of Transient Spatial Stimuli. Cell Syst. 2018 ;6(6):655-663.e5.