Lab Publications
Neural query system: data-mining from within the NEURON simulator.
Neuroinformatics. 4, 163-176.
(2006). Network-level effects of optogenetic stimulation in a computer model of macaque primary motor cortex.
BMC Neuroscience. 15, P107.
(2014). Network-level coincidence detection in a computer simulation of primary motor cortex.
Society for Neuroscience 2013 (SFN '13).
(2013). NetPyNE: a Python package for NEURON to facilitate development and parallel simulation of biological neuronal networks.
Computational Neuroscience.
(2016). NetPyNE: A GUI-based tool to build, simulate and analyze large-scale, data-driven network models in parallel NEURON.
Society for Neuroscience 2018 (SFN '18).
(2018). Neocortical simulation for epilepsy surgery guidance: localization and intervention.
(Bass, B., & Garbey M., Ed.).Computational Surgery and Dual Training. 339–349.
(2014). Muscarinic receptor mediated responses in thalamic local interneurons.
snabs. 22, 574.8.
(1996). Multithreaded Stochastic PDES for Reactions and Diffusions in Neurons.
ACM Transactions on Modeling and Computer Simulation (TOMACS). 27, 7.
(2017). Multitarget multiscale simulation for pharmacological treatment of dystonia in motor cortex.
Front Pharmacol. 7, 157.
(2016). Multiscale simulation of spreading depolarization in ischemic stroke.
Society for Neuroscience 2018 (SFN '18).
(2018). Multiscale modeling of brain disease.
Society for Neuroscience 2018 (SFN '18).
(2018). Multiscale modeling in the clinic: diseases of the brain and nervous system.
Brain Inform. 4, 219-230.
(2017). Multiscale modeling for clinical translation in neuropsychiatric disease.
J Comput Surgery. 1, 7.
(2014). Multiscale computer modeling of penumbral zones in brain ischemia.
Society for Neuroscience 2017 (SFN '17).
(2017).
(2015). Motor cortex neurons: from experiment to model via evolutionary algorithms.
Computational Neuroscience.
(2015). Motor cortex microcircuit simulation based on brain activity mapping.
Neural Comput. 26, 1239–1262.
(2014). Mosaic multiscale computer modeling of ischemic stroke.
Society for Neuroscience 2016 (SFN '16).
(2016). Modulation of virtual arm trajectories via microstimulation in a spiking model of sensorimotor cortex.
BMC Neuroscience. 15, P106.
(2014). Modulation of stimulus fields in a computer model of the thalamocortical system.
Society for Neuroscience.
(2011). Modeling thalamocortical oscillations.
(Ulinski, P., Jones EG., & Peters A., Ed.).Cerebral Cortex. 13, 479-509.
(1999). Modeling pathogenesis and treatment response in childhood absence epilepsy.
Epilepsia. 59, 135–145.
(2018). Modeling molecular pathways of neuronal ischemia.
Prog Mol Biol Transl Sci. 123, 249–275.
(2014). Modeling electrodiffusion with the NEURON reaction-diffusion module.
Society for Neuroscience 2017 (SFN '17).
(2017). Microconnectomics of primary motor cortex: a multiscale computer model.
Multiscale Modeling. National Institutes of Health.
(2015). A method for multi-simulator reaction-diffusion with NEURON.
Computational Neuroscience.
(2014). Measuring the quality of neuronal identification in ensemble recordings.
jnsci. 31, 16398–16409.
(2011).
(2017).
(2018).
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).
(1989). Local axon collaterals of area ca1 support spread of epileptiform discharges within CA1, but propagation is unidirectional.
Hippocampus. 18, 1021-1033.
(2008). Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons.
J Simulation. 11, 267.
(2017). 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). Ketamine disrupts theta modulation of gamma in a computer model of hippocampus.
J Neurosci. 31, 11733-11743.
(2011). Just-in-time connectivity for large spiking networks.
ncomp. 20, 2745-2756.
(2008). An intrinsic oscillation in interneurons of the rat lateral geniculate nucleus.
jnphys. 81, 702-711.
(1999). Interlaminar Granger causality and alpha oscillations in a model of macaque cortex.
Computational Neuroscience.
(2011). Interlaminar feedback connections dominate in macaque inferotemporal cortex: in vivo and in silico studies.
Society for Neuroscience.
(2011). Interictal EEG Discoordination in a Rat Seizure Model.
J Clin Neurophysiol. 27, 438–444.
(2010). Interictal EEG discoordination in a rat seizure model.
Statistical Analysis of Neuronal Data.
(2010). Interfacing a biomimetic model of sensorimotor cortex with a musculoskeletal model and a robotic arm.
Society for Neuroscience 2013 (SFN '13).
(2013). Interfaces in multiscale reaction-diffusion models in the NEURON simulator.
Society for Neuroscience 2013 (SFN '13).
(2013). 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). Input-to-output transformation in a model of the rat hippocampal CA1 network.
Front Comput Neurosci. 6, 57.
(2012). Inhibition Can Disrupt Hypersynchrony In Model Neuronal Networks.
Progress in neuro-psychopharmacology & biological psychiatry.
(1997). Information transmission vs processing in computer models of neocortical columns.
Society for Neuroscience 2009 (SFN '09).
(2009). Information flow in optogenetically stimulated macaque motor cortex: simulation and experiment.
Neural Control of Movement (NCM) meeting.
(2014). Independent variable timestep integration of individual neurons for network simulations.
17, 903-921.
(2005). Independent dendritic domains in the thalamic circuit.
Neurocomputing. 32, 299–305.
(2000). Ih Tunes theta/gamma oscillations and cross-frequency coupling in an in silico CA3 model.
PLoS One. 8, e76285.
(2013). Identifying avalanches in simulated mouse primary motor cortex (M1).
Society for Neuroscience 2018 (SFN '18).
(2018). Hybrid neural networks - combining abstract and realistic neural units.
IEEE Engineering in Medicine and Biology Society Proceedings. 6, 3996-3998.
(2004). Hybrid 1d/3d reaction-diffusion in the neuron simulator.
Society for Neuroscience 2015 (SFN '15).
(2015). Grid-cell models for navigation and context discrimination.
Society for Neuroscience 2009 (SFN '09).
(2009). Genome-wide associations of schizophrenia studied with computer simulation.
(Cutsuridis, V., Graham BP., Cobb S., & Vida I., Ed.).Hippocampal Microcircuits: A Computational Modeler's Resource Book. 2,
(2018).
(1997).
(2002).
Expanding NEURON support for reaction-diffusion models.
Society for Neuroscience 2016 (SFN '16).
(2016). Evolutionary algorithm optimization of biological learning parameters in a biomimetic neuroprosthesis.
IBM Journal of Research and Development. 61, 6–1.
(2017). Evaluating Hebbian reinforcement learning BMI using an in silico brain model and a virtual musculoskeletal arm..
Neural Control of Movement.
(2014). Emergent oscillations in neocortex: a simulation study.
Dynamical Neuroscience XVIII: The Resting Brain: Not at Rest! Satellite meeting for Society for Neuroscience Meeting.
(2010). Emergence of physiological oscillation frequencies in a computer model of neocortex.
Front Comput Neurosci. 5, 19.
(2011). Embedded ensemble encoding hypothesis: The role of the ``Prepared'' cell.
J. Neurosci. Res..
(2018). Embedded ensemble encoding: A hypothesis for reconciling cortical coding strategies.
Society for Neuroscience 2018 (SFN '18).
(2018). Electrostimulation to reduce synaptic scaling driven progression of Alzheimer's disease.
Front Comput Neurosci. 8, 39.
(2014). Electrostimulation as a prosthesis for repair of information flow in a computer model of neocortex.
IEEE Trans Neural Syst Rehab Eng. 20, 153–60.
(2012). Effects of basal ganglia on cortical computation: a hybrid network/neural field model.
Society for Neuroscience.
(2012). Effects of basal ganglia on cortical computation: A hybrid network/neural field model.
Society for Neuroscience 2012 (SFN '12).
(2012). Dynamically repairing and replacing neural networks: using hybrid computational and biological tools.
{IEEE} Pulse. 3, 57-59.
(2012). Dynamical microstates in primary auditory cortex.
Society for Neuroscience Abstracts. 43,
(2013). Dynamical microstates in primary auditory cortex.
Society for Neuroscience 2013 (SFN '13).
(2013). Dynamic interactions determine partial thalamic quiescence in a computer network model of spike-and-wave seizures.
jnphys. 77, 1679-1696.
(1997). 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).