Lab Publications
Integrating Systems Biology Markup Language (SBML) with NEURON.
Society for Neuroscience 2014 (SFN '14).
(2014). Integrating Systems Biology Markup Language (SBML) with NEURON.
Computational Neuroscience.
(2014). A method for multi-simulator reaction-diffusion with NEURON.
Computational Neuroscience.
(2014). Modeling molecular pathways of neuronal ischemia.
Prog Mol Biol Transl Sci. 123, 249–275.
(2014). Modulation of virtual arm trajectories via microstimulation in a spiking model of sensorimotor cortex.
BMC Neuroscience. 15, P106.
(2014). Modulation of virtual arm trajectories via microstimulation in a spiking model of sensorimotor cortex.
Computational Neuroscience Meeting (CNS '14). 15, P106.
(2014). Motor cortex microcircuit simulation based on brain activity mapping.
Neural Comput. 26, 1239–1262.
(2014). Multiscale modeling for clinical translation in neuropsychiatric disease.
J Comput Surgery. 1, 7.
(2014). Neocortical simulation for epilepsy surgery guidance: localization and intervention.
(Bass, B., & Garbey M., Ed.).Computational Surgery and Dual Training. 339–349.
(2014). Network-level effects of optogenetic stimulation in a computer model of macaque primary motor cortex.
Computational Neuroscience Meeting (CNS 14').
(2014). Network-level effects of optogenetic stimulation in a computer model of macaque primary motor cortex.
BMC Neuroscience. 15, P107.
(2014). Neuron time warp.
Simulation Conference (WSC), 2014 Winter. 3447–3458.
(2014). One size does not fit all: Calibrating microstimulation to individual subjects using spiking network models.
Society for Neuroscience 2014 (SFN '14).
(2014). Repairing lesions via microstimulation in a spiking network model driving a virtual arm..
Society for Neuroscience.
(2014). Stochastic diffusion simulation in NEURON.
Society for Neuroscience 2014 (SFN '14).
(2014). Thalamocortical dynamics of rhythmic selective and tonic suppressive modes in the auditory system.
Society for Neuroscience 2014 (SFN '14).
(2014). Thalamocortical dynamics of rhythmic selective and tonic suppressive modes in the auditory system.
Society for Neuroscience Abstracts. 44,
(2014). Towards a real-time interface between a biomimetic model of sensorimotor cortex and a robotic arm.
Pattern Recognit Lett. 36, 204–212.
(2014). Towards real-time communication between in vivo neurophysiological data sources and simulator-based brain biomimetic models.
Journal of Computational Surgery. 3, 12.
(2014). Beyond the canon: temporal and spatial multiscale organization in cortex.
Computational Neuroscience Meeting Workshop.
(2015). Computer model of endocannabinoid effects in CA3.
Society for Neuroscience 2015 (SFN '15).
(2015). Computer modeling of ischemic stroke.
Scholarpedia. 10, 32015; revision \#148671; Accessed Oct 12, 2015.
(2015). Cortical spiking network interfaced with virtual musculoskeletal arm and robotic arm.
Frontiers in Neurorobotics. 9,
(2015). A dynamic data-driven approach to closed-loop neuroprosthetics based on multiscale biomimetic brain models.
IEEE Interanationl Conference on High Performance Computing 2015 Workshop: InfoSymbiotics/Dynamic Data Driven Applications Systems (DDDAS) for Smarter Systems, Bangalore, India.
(2015). Hybrid 1d/3d reaction-diffusion in the neuron simulator.
Society for Neuroscience 2015 (SFN '15).
(2015). Impaired dendritic inhibition leads to epileptic activity in a computer model of CA3.
Hippocampus. in press.
(2015). Large-scale M1 microcircuit model with plastic input connections from biological PMd neurons used for prosthetic arm control.
24th Annual Computational Neuroscience Meeting (CNS15).
(2015). Microconnectomics of primary motor cortex: a multiscale computer model.
Multiscale Modeling. National Institutes of Health.
(2015). Motor cortex neurons: from experiment to model via evolutionary algorithms.
Computational Neuroscience.
(2015).
(2015). Neuronal calcium wave propagation varies with changes in endoplasmic reticulum parameters: a computer model.
Neural Comput. 27, 898–924.
(2015). Neuronal network bump attractors augmented by calcium up-regulation of Ih in a multiscale computer model of prefrontal cortex.
Society for Neuroscience 2015 (SFN '15).
(2015). Normalized cortical depth (NCD) as a primary coordinate system for cell connectivity in cortex: experiment and model.
Society for Neuroscience 2015 (SFN '15).
(2015). Ntw-mt: A multi-threaded simulator for reaction diffusion simulations in neuron.
Proceedings of the 3rd ACM SIGSIM Conference on Principles of Advanced Discrete Simulation. 157–167.
(2015). Optimizing computer models of layer 5 motor cortex pyramidal neurons using somatic whole-cell recordings.
Society for Neuroscience.
(2015). Parallel reaction-diffusion simulation in NEURON.
Society for Neuroscience 2015 (SFN '15).
(2015). Parallelizing large networks using NEURON-Python.
BMC Neuroscience.
(2015). Repairing Lesions via Kernel Adaptive Inverse Control in a Biomimetic Model of Sensorimotor Cortex.
Neural Engineering (NER), 2015 7th International IEEE/EMBS Conference. 1-4.
(2015). Spiking network modeling of neuronal dynamics in individual rats.
BMC Neuroscience.
(2015). Ten "not so simple" rules for credible practice of modeling & simulation in healthcare.
Frontiers in Medical Devices Meeting.
(2015). 25th Annual Computational Neuroscience Meeting: CNS-2016.
BMC Neuroscience. 17, 54.
(2016). Beta oscillations in neocortex: A multiscale modeling study.
Society for Neuroscience 2016 (SFN '16).
(2016). Brain Diseases.
(Arbib, MA., & Bonaiuto JJ., Ed.).From Neuron to Cognition Via Computational Neuroscience. 673-692.
(2016). Calcium regulation of HCN channels supports persistent activity in a multiscale model of neocortex.
Neurosci. 316, 344-366.
(2016). Computational capacity as a function of network size.
Society for Neuroscience 2016 (SFN '16).
(2016). Dendritic morphology of corticospinal and crossed-corticostriatal neurons in mouse primary motor cortex.
Society for Neuroscience 2016 (SFN '16).
(2016). Effect of network size on computational capacity.
Computational Neuroscience Meeting (CNS 16').
(2016). Expanding NEURON support for reaction-diffusion models.
Society for Neuroscience 2016 (SFN '16).
(2016). Global dynamics of selective attention and its lapses in primary auditory cortex.
Nat Neurosci. In press.
(2016). Mosaic multiscale computer modeling of ischemic stroke.
Society for Neuroscience 2016 (SFN '16).
(2016). Multiscale modeling of multitarget pharmacotherapy for dystonia.
Computational Neuroscience Meeting (CNS 16').
(2016). Multitarget multiscale simulation for pharmacological treatment of dystonia in motor cortex.
Front Pharmacol. 7, 157.
(2016). NetPyNE: a Python package for NEURON to facilitate development and parallel simulation of biological neuronal networks.
Computational Neuroscience.
(2016). NetPyNE: a Python package for NEURON to facilitate development and parallel simulation of biological neuronal networks.
Computational Neuroscience Meeting (CNS 16').
(2016). Reproducibility in computational neuroscience models and simulations.
{IEEE} Trans Biomed Eng. 63, 2021-2035.
(2016). Restoring behavior via inverse neurocontroller in a lesioned cortical spiking model driving a virtual arm.
Front Neurosci. 10, 28.
(2016). Schizophrenia genome-wide association studied with computer simulation: gamma oscillations and information flow in CA3.
Society for Neuroscience 2016 (SFN '16).
(2016). A set of curated cortical models at multiple scales on Open Source Brain.
Computational Neuroscience Meeting (CNS 16').
(2016). Simulation neurotechnologies for advancing brain research: parallelizing large networks in NEURON.
Neural Comput. 28, 2063-2090.
(2016). 26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1.
BMC Neuroscience. 18, 58.
(2017). Computer modeling for pharmacological treatments for dystonia.
Drug Discov Today: Dis Model. In Press.
(2017). Computer modeling of epilepsy: opportunities for drug discovery.
Drug Discov Today: Dis Model. In press.
(2017). Computer modeling of ischemic stroke.
Drug Discov Today: Dis Model. 30, In press.
(2017). Computers, causality and cure in epilepsy.
Brain. 140, 516-519.
(2017). Cortical ensembles based on dendritic plateau generation in the prefrontal cortex.
Society for Neuroscience 2017 (SFN '17).
(2017). Dendritic plateau generation model in cortical pyramidal neurons: A link to cortical ensembles.
Society for Neuroscience 2017 (SFN '17).
(2017). Evolutionary algorithm optimization of biological learning parameters in a biomimetic neuroprosthesis.
IBM Journal of Research and Development. 61, 6–1.
(2017). Geppetto: an open source visualisation and simulation platform for neuroscience.
Computational Neuroscience Meeting (CNS 17').
(2017). Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons.
J Simulation. 11, 267.
(2017). Long-range inputs and H-current regulate different modes of operation in a multiscale model of mouse M1 microcircuits.
Society for Neuroscience 2017 (SFN '17).
(2017). Measurement of peripheral vision reaction time identifies white matter disruption in patients with mild traumatic brain injury.
J Neurotrauma.
(2017). Modeling electrodiffusion with the NEURON reaction-diffusion module.
Society for Neuroscience 2017 (SFN '17).
(2017). Multiscale computer modeling of penumbral zones in brain ischemia.
Society for Neuroscience 2017 (SFN '17).
(2017). Multiscale modeling in the clinic: diseases of the brain and nervous system.
Brain Inform. 4, 219-230.
(2017). Multithreaded Stochastic PDES for Reactions and Diffusions in Neurons.
ACM Transactions on Modeling and Computer Simulation (TOMACS). 27, 7.
(2017).