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Items: 1 to 50 of 92


Integrating machine learning and multiscale modeling-perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences.

Alber M, Buganza Tepole A, Cannon WR, De S, Dura-Bernal S, Garikipati K, Karniadakis G, Lytton WW, Perdikaris P, Petzold L, Kuhl E.

NPJ Digit Med. 2019 Nov 25;2:115. doi: 10.1038/s41746-019-0193-y. eCollection 2019. Review.


Amyloid pathology-produced unexpected modifications of calcium homeostasis in hippocampal subicular dendrites.

Angulo SL, Henzi T, Neymotin SA, Suarez MD, Lytton WW, Schwaller B, Moreno H.

Alzheimers Dement. 2020 Feb;16(2):251-261. doi: 10.1016/j.jalz.2019.07.017. Epub 2020 Jan 6.


Open Source Brain: A Collaborative Resource for Visualizing, Analyzing, Simulating, and Developing Standardized Models of Neurons and Circuits.

Gleeson P, Cantarelli M, Marin B, Quintana A, Earnshaw M, Sadeh S, Piasini E, Birgiolas J, Cannon RC, Cayco-Gajic NA, Crook S, Davison AP, Dura-Bernal S, Ecker A, Hines ML, Idili G, Lanore F, Larson SD, Lytton WW, Majumdar A, McDougal RA, Sivagnanam S, Solinas S, Stanislovas R, van Albada SJ, van Geit W, Silver RA.

Neuron. 2019 Aug 7;103(3):395-411.e5. doi: 10.1016/j.neuron.2019.05.019. Epub 2019 Jun 11.


NetPyNE, a tool for data-driven multiscale modeling of brain circuits.

Dura-Bernal S, Suter BA, Gleeson P, Cantarelli M, Quintana A, Rodriguez F, Kedziora DJ, Chadderdon GL, Kerr CC, Neymotin SA, McDougal RA, Hines M, Shepherd GM, Lytton WW.

Elife. 2019 Apr 26;8. pii: e44494. doi: 10.7554/eLife.44494.


Using NEURON for Reaction-Diffusion Modeling of Extracellular Dynamics.

Newton AJH, McDougal RA, Hines ML, Lytton WW.

Front Neuroinform. 2018 Jul 10;12:41. doi: 10.3389/fninf.2018.00041. eCollection 2018.


Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience.

Mulugeta L, Drach A, Erdemir A, Hunt CA, Horner M, Ku JP, Myers JG Jr, Vadigepalli R, Lytton WW.

Front Neuroinform. 2018 Apr 16;12:18. doi: 10.3389/fninf.2018.00018. eCollection 2018. Review.


Embedded ensemble encoding hypothesis: The role of the "Prepared" cell.

Antic SD, Hines M, Lytton WW.

J Neurosci Res. 2018 Sep;96(9):1543-1559. doi: 10.1002/jnr.24240. Epub 2018 Apr 6. Review.


Modeling pathogenesis and treatment response in childhood absence epilepsy.

Knox AT, Glauser T, Tenney J, Lytton WW, Holland K.

Epilepsia. 2018 Jan;59(1):135-145. doi: 10.1111/epi.13962. Epub 2017 Dec 18.


Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons.

Lin Z, Tropper C, Yao Y, Mcdougal RA, Ishlam Patoary MN, Lytton WW, Hines ML.

J Simul. 2017 Aug;11(3):267-284. doi: 10.1057/s41273-016-0033-x. Epub 2016 Oct 25.


Evolutionary algorithm optimization of biological learning parameters in a biomimetic neuroprosthesis.

Dura-Bernal S, Neymotin SA, Kerr CC, Sivagnanam S, Majumdar A, Francis JT, Lytton WW.

IBM J Res Dev. 2017 Mar-May;61(2-3):6.1-6.14. doi: 10.1147/JRD.2017.2656758. Epub 2017 May 23.


Parallel Stochastic Discrete Event Simulation of Calcium Dynamics in Neuron.

Patoary MNI, Tropper C, McDougal RA, Lin Z, Lytton WW.

IEEE/ACM Trans Comput Biol Bioinform. 2019 May-Jun;16(3):1007-1019. doi: 10.1109/TCBB.2017.2756930. Epub 2017 Sep 26.


Multithreaded Stochastic PDES for Reactions and Diffusions in Neurons.

Lin Z, Tropper C, Mcdougal RA, Patoary MNI, Lytton WW, Yao Y, Hines ML.

ACM Trans Model Comput Simul. 2017 Jul;27(2). pii: 7. doi: 10.1145/2987373.


Tau and amyloid-related pathologies in the entorhinal cortex have divergent effects in the hippocampal circuit.

Angulo SL, Orman R, Neymotin SA, Liu L, Buitrago L, Cepeda-Prado E, Stefanov D, Lytton WW, Stewart M, Small SA, Duff KE, Moreno H.

Neurobiol Dis. 2017 Dec;108:261-276. doi: 10.1016/j.nbd.2017.08.015. Epub 2017 Aug 30.


Multiscale modeling in the clinic: diseases of the brain and nervous system.

Lytton WW, Arle J, Bobashev G, Ji S, Klassen TL, Marmarelis VZ, Schwaber J, Sherif MA, Sanger TD.

Brain Inform. 2017 Dec;4(4):219-230. doi: 10.1007/s40708-017-0067-5. Epub 2017 May 9. Review.


Computers, causality and cure in epilepsy.

Lytton WW.

Brain. 2017 Mar 1;140(3):516-526. doi: 10.1093/brain/awx018. No abstract available.


Measurement of Peripheral Vision Reaction Time Identifies White Matter Disruption in Patients with Mild Traumatic Brain Injury.

Womack KB, Paliotta C, Strain JF, Ho JS, Skolnick Y, Lytton WW, Turtzo LC, McColl R, Diaz-Arrastia R, Bergold PJ.

J Neurotrauma. 2017 Apr 15;34(8):1539-1545. doi: 10.1089/neu.2016.4670. Epub 2017 Jan 13.


Optimizing computer models of corticospinal neurons to replicate in vitro dynamics.

Neymotin SA, Suter BA, Dura-Bernal S, Shepherd GM, Migliore M, Lytton WW.

J Neurophysiol. 2017 Jan 1;117(1):148-162. doi: 10.1152/jn.00570.2016. Epub 2016 Oct 19.


Tracking recurrence of correlation structure in neuronal recordings.

Neymotin SA, Talbot ZN, Jung JQ, Fenton AA, Lytton WW.

J Neurosci Methods. 2017 Jan 1;275:1-9. doi: 10.1016/j.jneumeth.2016.10.009. Epub 2016 Oct 13.


Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON.

Lytton WW, Seidenstein AH, Dura-Bernal S, McDougal RA, Schürmann F, Hines ML.

Neural Comput. 2016 Oct;28(10):2063-90. doi: 10.1162/NECO_a_00876. Epub 2016 Aug 24.


Multitarget Multiscale Simulation for Pharmacological Treatment of Dystonia in Motor Cortex.

Neymotin SA, Dura-Bernal S, Lakatos P, Sanger TD, Lytton WW.

Front Pharmacol. 2016 Jun 14;7:157. doi: 10.3389/fphar.2016.00157. eCollection 2016.


Reproducibility in Computational Neuroscience Models and Simulations.

McDougal RA, Bulanova AS, Lytton WW.

IEEE Trans Biomed Eng. 2016 Oct;63(10):2021-35. doi: 10.1109/TBME.2016.2539602. Epub 2016 Mar 8.


Computer modeling of epilepsy: opportunities for drug discovery.

Lytton WW.

Drug Discov Today Dis Models. 2016 Spring;19:27-30. doi: 10.1016/j.ddmod.2017.02.007. Epub 2017 Jun 3.


Computer modeling for pharmacological treatments for dystonia.

Neymotin SA, Dura-Bernal S, Moreno H, Lytton WW.

Drug Discov Today Dis Models. 2016 Spring;19:51-57. doi: 10.1016/j.ddmod.2017.02.003. Epub 2017 Mar 31.


Computer modeling of ischemic stroke.

Newton AJH, Lytton WW.

Drug Discov Today Dis Models. 2016 Spring;19:77-83. doi: 10.1016/j.ddmod.2017.01.001. Epub 2017 Feb 21.


Restoring Behavior via Inverse Neurocontroller in a Lesioned Cortical Spiking Model Driving a Virtual Arm.

Dura-Bernal S, Li K, Neymotin SA, Francis JT, Principe JC, Lytton WW.

Front Neurosci. 2016 Feb 9;10:28. doi: 10.3389/fnins.2016.00028. eCollection 2016.


Calcium regulation of HCN channels supports persistent activity in a multiscale model of neocortex.

Neymotin SA, McDougal RA, Bulanova AS, Zeki M, Lakatos P, Terman D, Hines ML, Lytton WW.

Neuroscience. 2016 Mar 1;316:344-66. doi: 10.1016/j.neuroscience.2015.12.043. Epub 2015 Dec 31.


Towards real-time communication between in vivo neurophysiological data sources and simulator-based brain biomimetic models.

Lee G, Matsunaga A, Dura-Bernal S, Zhang W, Lytton WW, Francis JT, Fortes JA.

J Comput Surg. 2014 Nov;3(12):1-23.


Cortical Spiking Network Interfaced with Virtual Musculoskeletal Arm and Robotic Arm.

Dura-Bernal S, Zhou X, Neymotin SA, Przekwas A, Francis JT, Lytton WW.

Front Neurorobot. 2015 Nov 25;9:13. doi: 10.3389/fnbot.2015.00013. eCollection 2015.


Neuronal calcium wave propagation varies with changes in endoplasmic reticulum parameters: a computer model.

Neymotin SA, McDougal RA, Sherif MA, Fall CP, Hines ML, Lytton WW.

Neural Comput. 2015 Apr;27(4):898-924. doi: 10.1162/NECO_a_00712. Epub 2015 Mar 3.


Computer modeling of ischemic stroke.

Seidenstein AH, Barone FC, Lytton WW.

Scholarpedia J. 2015;10(3). pii: 32015. No abstract available.


Electrostimulation to reduce synaptic scaling driven progression of Alzheimer's disease.

Rowan MS, Neymotin SA, Lytton WW.

Front Comput Neurosci. 2014 Apr 3;8:39. doi: 10.3389/fncom.2014.00039. eCollection 2014.


Motor cortex microcircuit simulation based on brain activity mapping.

Chadderdon GL, Mohan A, Suter BA, Neymotin SA, Kerr CC, Francis JT, Shepherd GM, Lytton WW.

Neural Comput. 2014 Jul;26(7):1239-62. doi: 10.1162/NECO_a_00602. Epub 2014 Apr 7.


Modeling molecular pathways of neuronal ischemia.

Taxin ZH, Neymotin SA, Mohan A, Lipton P, Lytton WW.

Prog Mol Biol Transl Sci. 2014;123:249-75. doi: 10.1016/B978-0-12-397897-4.00014-0. Review.


Towards a real-time interface between a biomimetic model of sensorimotor cortex and a robotic arm.

Dura-Bernal S, Chadderdon GL, Neymotin SA, Francis JT, Lytton WW.

Pattern Recognit Lett. 2014 Jan 15;36:204-212.


Multiscale modeling for clinical translation in neuropsychiatric disease.

Lytton WW, Neymotin SA, Kerr CC.

J Comput Surg. 2014;1. pii: 7. Epub 2014 Mar 3.


Reaction-diffusion in the NEURON simulator.

McDougal RA, Hines ML, Lytton WW.

Front Neuroinform. 2013 Nov 15;7:28. doi: 10.3389/fninf.2013.00028. eCollection 2013.


Ih tunes theta/gamma oscillations and cross-frequency coupling in an in silico CA3 model.

Neymotin SA, Hilscher MM, Moulin TC, Skolnick Y, Lazarewicz MT, Lytton WW.

PLoS One. 2013 Oct 18;8(10):e76285. doi: 10.1371/journal.pone.0076285. eCollection 2013. Erratum in: PLoS One. 2013;8(12). doi:10.1371/annotation/00ea7ef3-aafd-4675-a3cc-c5087816b4d6.


Water-tight membranes from neuronal morphology files.

McDougal RA, Hines ML, Lytton WW.

J Neurosci Methods. 2013 Nov 15;220(2):167-78. doi: 10.1016/j.jneumeth.2013.09.011. Epub 2013 Sep 30.


Reinforcement learning of two-joint virtual arm reaching in a computer model of sensorimotor cortex.

Neymotin SA, Chadderdon GL, Kerr CC, Francis JT, Lytton WW.

Neural Comput. 2013 Dec;25(12):3263-93. doi: 10.1162/NECO_a_00521. Epub 2013 Sep 18.


Cortical information flow in Parkinson's disease: a composite network/field model.

Kerr CC, Van Albada SJ, Neymotin SA, Chadderdon GL, Robinson PA, Lytton WW.

Front Comput Neurosci. 2013 Apr 25;7:39. doi: 10.3389/fncom.2013.00039. eCollection 2013.


Cortical plasticity induced by spike-triggered microstimulation in primate somatosensory cortex.

Song W, Kerr CC, Lytton WW, Francis JT.

PLoS One. 2013;8(3):e57453. doi: 10.1371/journal.pone.0057453. Epub 2013 Mar 5. Erratum in: PLoS One. 2013; 8(3). doi:10.1371/annotation/26c3d7a9-80dc-4719-bf61-968e5f322983. PLoS One. 2013; 8(3). doi:10.1371/annotation/a697686c-a062-4520-a9df-d5d0bbb42c7d.


Reinforcement learning of targeted movement in a spiking neuronal model of motor cortex.

Chadderdon GL, Neymotin SA, Kerr CC, Lytton WW.

PLoS One. 2012;7(10):e47251. doi: 10.1371/journal.pone.0047251. Epub 2012 Oct 19. Erratum in: PLoS One. 2013;8(4). doi: 10.1371/annotation/f6185650-eb8d-430b-9410-d079c56cef7f.


Input-to-output transformation in a model of the rat hippocampal CA1 network.

Olypher AV, Lytton WW, Prinz AA.

Front Comput Neurosci. 2012 Aug 6;6:57. doi: 10.3389/fncom.2012.00057. eCollection 2012.


Electrostimulation as a prosthesis for repair of information flow in a computer model of neocortex.

Kerr CC, Neymotin SA, Chadderdon GL, Fietkiewicz CT, Francis JT, Lytton WW.

IEEE Trans Neural Syst Rehabil Eng. 2012 Mar;20(2):153-60. doi: 10.1109/TNSRE.2011.2178614. Epub 2011 Dec 13.


Measuring the quality of neuronal identification in ensemble recordings.

Neymotin SA, Lytton WW, Olypher AV, Fenton AA.

J Neurosci. 2011 Nov 9;31(45):16398-409. doi: 10.1523/JNEUROSCI.4053-11.2011.


Ketamine disrupts θ modulation of γ in a computer model of hippocampus.

Neymotin SA, Lazarewicz MT, Sherif M, Contreras D, Finkel LH, Lytton WW.

J Neurosci. 2011 Aug 10;31(32):11733-43. doi: 10.1523/JNEUROSCI.0501-11.2011.


Emergence of physiological oscillation frequencies in a computer model of neocortex.

Neymotin SA, Lee H, Park E, Fenton AA, Lytton WW.

Front Comput Neurosci. 2011 Apr 19;5:19. doi: 10.3389/fncom.2011.00019. eCollection 2011.


Interictal EEG discoordination in a rat seizure model.

Neymotin SA, Lee H, Fenton AA, Lytton WW.

J Clin Neurophysiol. 2010 Dec;27(6):438-44. doi: 10.1097/WNP.0b013e3181fe059e.


Synaptic information transfer in computer models of neocortical columns.

Neymotin SA, Jacobs KM, Fenton AA, Lytton WW.

J Comput Neurosci. 2011 Feb;30(1):69-84. doi: 10.1007/s10827-010-0253-4. Epub 2010 Jun 17.


Attention-like modulation of hippocampus place cell discharge.

Fenton AA, Lytton WW, Barry JM, Lenck-Santini PP, Zinyuk LE, Kubík S, Bures J, Poucet B, Muller RU, Olypher AV.

J Neurosci. 2010 Mar 31;30(13):4613-25. doi: 10.1523/JNEUROSCI.5576-09.2010.

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