Neuroanatomical Imaging: Constrained 3D Reconstruction Using Variational Implicit Techniques. - Jean-Marie Bouteiller; Michel Baudry (3DPVT, 2002)

A real-scale anatomical model of the dentate gyrus based on single cell reconstructions and 3D rendering of a brain atlas. - Ruggero Scorcioni; Jean-Marie Bouteiller; Giorgio A. Ascoli (Neurocomputing, 2002)

Implicit functions: applications in medicine and biology. - Jean-Marie Bouteiller; Benjamin Wu; Michel Baudry (Image-Guided Procedures, 2003)

EONS: An Online Synaptic Modeling Platform. - Jean-Marie C. Bouteiller; Yumei Qiu; Mohammed B. Ziane; Michel Baudry; Theodore W. Berger (EMBC, 2006)

Modeling of the nervous system: From molecular dynamics and synaptic modulation to neuron spiking activity. - Jean-Marie C. Bouteiller; Sushmita L. Allam; Eric Y. Hu; Renaud Greget; Nicolas Ambert; Anne Florence Keller; Fabien Pernot; Serge Bischoff; Michel Baudry; Theodore W. Berger (EMBC, 2011)

Modeling neuron-glia interactions: From parametric model to neuromorphic hardware. - Viviane S. Ghaderi; Sushmita L. Allam; Nicolas Ambert; Jean-Marie C. Bouteiller; John Choma Jr.; Theodore W. Berger (EMBC, 2011)

Integrated Multiscale Modeling of the Nervous System: Predicting Changes in Hippocampal Network Activity by a Positive AMPA Receptor Modulator. - Jean-Marie Bouteiller; Sushmita L. Allam; Eric Y. Hu; Renaud Greget; Nicolas Ambert; Anne Florence Keller; Serge Bischoff; Michel Baudry; Theodore W. Berger (IEEE Trans. Biomed. Eng., 2011)

Influence of ionotropic receptor location on their dynamics at glutamatergic synapses. - Sushmita L. Allam; Jean-Marie C. Bouteiller; Eric Y. Hu; Renaud Greget; Nicolas Ambert; Serge Bischoff; Michel Baudry; Theodore W. Berger (EMBC, 2012)

Modeling of the nervous system: From modulation of glutamatergic and gabaergic molecular dynamics to neuron spiking activity. - Jean-Marie C. Bouteiller; Arnaud Legendre; Sushmita L. Allam; Nicolas Ambert; Eric Y. Hu; Renaud Greget; Anne Florence Keller; Fabien Pernot; Serge Bischoff; Michel Baudry; Theodore W. Berger (EMBC, 2012)

A Computational Model to Investigate Astrocytic Glutamate Uptake Influence on Synaptic Transmission and Neuronal Spiking. - Sushmita L. Allam; Viviane S. Ghaderi; Jean-Marie Bouteiller; Arnaud Legendre; Nicolas Ambert; Renaud Greget; Serge Bischoff; Michel Baudry; Theodore W. Berger (Frontiers Comput. Neurosci., 2012)

Influence of ionotropic receptors localization on glutamatergic synaptic response to paired-pulse stimulation protocol. - Jean-Marie C. Bouteiller; Sushmita L. Allam; Nicolas Ambert; Renaud Greget; Eric Y. Hu; Serge Bischoff; Michel Baudry; Theodore W. Berger (EMBC, 2013)

Insights on synaptic paired-pulse response using parametric and non-parametric models. - Jean-Marie C. Bouteiller; Eric Y. Hu; Sushmita L. Allam; Viviane S. Ghaderi; Dong Song; Theodore W. Berger (EMBC, 2013)

A programmable analog subthreshold biomimetic model for bi-directional communication with the brain. - Viviane S. Ghaderi; Dong Song; Jean-Marie C. Bouteiller; John Choma Jr.; Theodore W. Berger (EMBC, 2013)

A comparison between direct and indirect measurements of neurotransmitter vesicle release dynamics: A computational study. - Eric Y. Hu; Jean-Marie C. Bouteiller; Mike Huang; Dong Song; Theodore W. Berger (EMBC, 2014)

The volterra functional series is a viable alternative to kinetic models for synaptic modeling -calibration and benchmarking. - Eric Y. Hu; Jean-Marie C. Bouteiller; Dong Song; Theodore W. Berger (EMBC, 2015)

Maximizing predictability of a bottom-up complex multi-scale model through systematic validation and multi-objective multi-level optimization. - Jean-Marie C. Bouteiller; Zhuobo Feng; Alexander Onopa; Mike Huang; Eric Y. Hu; Endre T. Somogyi; Michel Baudry; Serge Bischoff; Theodore W. Berger (NER, 2015)

libRoadRunner: a high performance SBML simulation and analysis library. - Endre T. Somogyi; Jean-Marie Bouteiller; James A. Glazier; Matthias König 003; J. Kyle Medley; Maciej H. Swat; Herbert M. Sauro (Bioinform., 2015)

Volterra representation enables modeling of complex synaptic nonlinear dynamics in large-scale simulations. - Eric Y. Hu; Jean-Marie C. Bouteiller; Dong Song; Michel Baudry; Theodore W. Berger (Frontiers Comput. Neurosci., 2015)

A large-scale detailed neuronal model of electrical stimulation of the dentate gyrus and perforant path as a platform for electrode design and optimization. - Clayton S. Bingham; Kyle Loizos; Gene J. Yu; Andrew Gilbert; Jean-Marie Bouteiller; Dong Song; Gianluca Lazzi; Theodore W. Berger (EMBC, 2016)

Development of a detailed model of calcium dynamics at the postsynaptic spine of an excitatory synapse. - Eric Y. Hu; Jean-Marie C. Bouteiller; Dong Song; Theodore W. Berger (EMBC, 2016)

Impact of Synaptic Localization and Subunit Composition of Ionotropic Glutamate Receptors on Synaptic Function: Modeling and Simulation Studies. - Anne Florence Keller; Nicolas Ambert; Arnaud Legendre; Mathieu Bedez; Jean-Marie Bouteiller; Serge Bischoff; Michel Baudry; Saliha Moussaoui (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Graph-Based Models of Cortical Axons for the Prediction of Neuronal Response to Extracellular Electrical Stimulation. - Clayton S. Bingham; Jean-Marie C. Bouteiller; Dong Song; Theodore W. Berger (EMBC, 2018)

Modeling Nonlinear Synaptic Dynamics: A Laguerre-Volterra Network Framework for Improved Computational Efficiency in Large Scale Simulations. - Eric Y. Hu; Gene J. Yu; Dong Song; Jean-Marie C. Bouteiller; Theodore W. Berger (EMBC, 2018)

Cholinergic Modulation of CA1 Pyramidal Cells via M1 Muscarinic Receptor Activation: A Computational Study at Physiological and Supraphysiological Levels. - Adam Mergenthal; Jean-Marie C. Bouteiller; Theodore W. Berger (EMBC, 2018)

A Glutamatergic Spine Model to Enable Multi-Scale Modeling of Nonlinear Calcium Dynamics. - Eric Y. Hu; Adam Mergenthal; Clayton S. Bingham; Dong Song; Jean-Marie Bouteiller; Theodore W. Berger (Frontiers Comput. Neurosci., 2018)

Model-Based Analysis of Electrode Placement and Pulse Amplitude for Hippocampal Stimulation. - Clayton S. Bingham; Kyle Loizos; Gene J. Yu; Andrew Gilbert; Jean-Marie C. Bouteiller; Dong Song; Gianluca Lazzi; Theodore W. Berger (IEEE Trans. Biomed. Eng., 2018)

Pathogenic Processes Underlying Alzheimer's Disease: Modeling the Effects of Amyloid Beta on Synaptic Transmission. - Jean-Marie C. Bouteiller; Adam R. Mergenthal; Eric Y. Hu; Theodore W. Berger (EMBC, 2019)

Editorial: Influence of Inter- and Intra-Synaptic Factors on Information Processing in the Brain. - Vito Di Maio; Jean-Marie C. Bouteiller (Frontiers Comput. Neurosci., 2019)

Axonal Anatomy Optimizes Spatial Encoding in the Rat Entorhinal-Dentate System: A Computational Study. - Gene J. Yu; Jean-Marie C. Bouteiller; Dong Song; Theodore W. Berger (IEEE Trans. Biomed. Eng., 2019)

A Computational Model of Mitochondria Motility in Axons. - Jiaan Zhu; Jian Loong Lim Jethro; Bowen Li; Adam Mergenthal; Adnan A. Rayes; Hejun Tang; Theodore W. Berger; Jean-Marie C. Bouteiller (EMBC, 2020)

ROOTS: An Algorithm to Generate Biologically Realistic Cortical Axons and an Application to Electroceutical Modeling. - Clayton S. Bingham; Adam Mergenthal; Jean-Marie C. Bouteiller; Dong Song; Gianluca Lazzi; Theodore W. Berger (Frontiers Comput. Neurosci., 2020)

Admittance Method for Estimating Local Field Potentials Generated in a Multi-Scale Neuron Model of the Hippocampus. - Clayton S. Bingham; Javad Paknahad; Christopher B. C. Girard; Kyle Loizos; Jean-Marie C. Bouteiller; Dong Song; Gianluca Lazzi; Theodore W. Berger (Frontiers Comput. Neurosci., 2020)

A Computational Model of the Cholinergic Modulation of CA1 Pyramidal Cell Activity. - Adam Mergenthal; Jean-Marie C. Bouteiller; Gene J. Yu; Theodore W. Berger (Frontiers Comput. Neurosci., 2020)

Topographic Organization of Correlation Along the Longitudinal and Transverse Axes in Rat Hippocampal CA3 Due to Excitatory Afferents. - Gene J. Yu; Jean-Marie C. Bouteiller; Theodore W. Berger (Frontiers Comput. Neurosci., 2020)

Electrode Spacing and Current Distribution in Electrical Stimulation of Peripheral Nerve: A Computational Modeling Study using Realistic Nerve Models. - Jinze Du; Andres Morales; Javad Paknahad; Pragya Kosta; Jean-Marie C. Bouteiller; Eduardo Fernández 001; Gianluca Lazzi (EMBC, 2021)

A Computational Model Simulates Light-Evoked Responses in the Retinal Cone Pathway. - Ege Iseri; Pragya Kosta; Javad Paknahad; Jean-Marie C. Bouteiller; Gianluca Lazzi (EMBC, 2021)

Modeling ON Cone Bipolar Cells for Electrical Stimulation. - Javad Paknahad; Pragya Kosta; Ege Iseri; Shayan Farzad; Jean-Marie C. Bouteiller; Mark S. Humayun; Gianluca Lazzi (EMBC, 2021)

Bridging Hierarchies in Multi-Scale Models of Neural Systems: Look-Up Tables Enable Computationally Efficient Simulations of Non-linear Synaptic Dynamics. - Duy-Tan J. Pham; Gene J. Yu; Jean-Marie C. Bouteiller; Theodore W. Berger (Frontiers Comput. Neurosci., 2021)

Electrical Stimulation Induced Current Distribution in Peripheral Nerves Varies Significantly with the Extent of Nerve Damage: A Computational Study Utilizing Convolutional Neural Network and Realistic Nerve Models. - Jinze Du; Andres Morales; Pragya Kosta; Jean-Marie C. Bouteiller; Gema Martinez; David J. Warren; Eduardo Fernández 001; Gianluca Lazzi (IWINAC (1), 2022)

Electrical Stimulation Induced Current Distribution in Peripheral Nerves Varies Significantly with the Extent of Nerve Damage: A Computational Study Utilizing Convolutional Neural Network and Realistic Nerve Models. - Jinze Du; Andres Morales; Pragya Kosta; Jean-Marie C. Bouteiller; Gema Martinez-Navarrete; David J. Warren; Eduardo Fernández 001; Gianluca Lazzi (Int. J. Neural Syst., 2023)

Maximizing theoretical and practical storage capacity in single-layer feedforward neural networks. - Zane Z. Chou; Jean-Marie C. Bouteiller (Frontiers Comput. Neurosci., 2025)

Dentate gyrus granule cell activation following extracellular electrical stimulation: a multi-scale computational model to guide hippocampal neurostimulation strategies. - Shayan Farzad; Tianyuan Wei; Jean-Marie C. Bouteiller; Gianluca Lazzi (Frontiers Comput. Neurosci., 2025)