Kim J, Leahy W, Shlizerman E. (2019). Neural Interactome: Interactive Simulation of a Neuronal System. Frontiers in computational neuroscience. 13 [PubMed]

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References and models cited by this paper

Abbott LF, Dayan P. (2001). Theoretical Neuroscience. Computational and Mathematical Modeling of Neural Systems.

Bock DD et al. (2011). Network anatomy and in vivo physiology of visual cortical neurons. Nature. 471 [PubMed]

Bostock M, Ogievetsky V, Heer J. (2011). D³: Data-Driven Documents. IEEE transactions on visualization and computer graphics. 17 [PubMed]

Briggman KL, Abarbanel HD, Kristan WB. (2006). From crawling to cognition: analyzing the dynamical interactions among populations of neurons. Current opinion in neurobiology. 16 [PubMed]

Briggman KL, Helmstaedter M, Denk W. (2011). Wiring specificity in the direction-selectivity circuit of the retina. Nature. 471 [PubMed]

Cantarelli M et al. (2018). Geppetto: a reusable modular open platform for exploring neuroscience data and models. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 373 [PubMed]

Carrillo MA, Guillermin ML, Rengarajan S, Okubo RP, Hallem EA. (2013). O2-sensing neurons control CO2 response in C. elegans. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33 [PubMed]

Chalfie M et al. (1985). The neural circuit for touch sensitivity in Caenorhabditis elegans. The Journal of neuroscience : the official journal of the Society for Neuroscience. 5 [PubMed]

Chen BL, Hall DH, Chklovskii DB. (2006). Wiring optimization can relate neuronal structure and function. Proceedings of the National Academy of Sciences of the United States of America. 103 [PubMed]

Chen W, De Schutter E. (2017). Time to Bring Single Neuron Modeling into 3D. Neuroinformatics. 15 [PubMed]

Driscoll M, Kaplan J. (1997). 23 Mechanotransduction Cold Spring Harbor Monograph Archive. 33

Druckmann S et al. (2014). Structured synaptic connectivity between hippocampal regions. Neuron. 81 [PubMed]

Durbin RM. (1987). Studies on the Development and Organisation of the Nervous System of Caenorhabditis elegans Phd Thesis University of Cambridge, UK.

Egelman DM, Montague PR. (1999). Calcium dynamics in the extracellular space of mammalian neural tissue. Biophysical journal. 76 [PubMed]

Goodman D, Brette R. (2008). Brian: a simulator for spiking neural networks in python. Frontiers in neuroinformatics. 2 [PubMed]

Goodman DF, Brette R. (2009). The brian simulator. Frontiers in neuroscience. 3 [PubMed]

Goodman MB, Hall DH, Avery L, Lockery SR. (1998). Active currents regulate sensitivity and dynamic range in C. elegans neurons. Neuron. 20 [PubMed]

Goodman MB, Lindsay TH, Lockery SR, Richmond JE. (2012). Electrophysiological methods for Caenorhabditis elegans neurobiology. Methods in cell biology. 107 [PubMed]

Gray JM, Hill JJ, Bargmann CI. (2005). A circuit for navigation in Caenorhabditis elegans. Proceedings of the National Academy of Sciences of the United States of America. 102 [PubMed]

Guo D, Wang Q, Perc M. (2012). Complex synchronous behavior in interneuronal networks with delayed inhibitory and fast electrical synapses. Physical review. E, Statistical, nonlinear, and soft matter physics. 85 [PubMed]

Hall DH, Russell RL. (1991). The posterior nervous system of the nematode Caenorhabditis elegans: serial reconstruction of identified neurons and complete pattern of synaptic interactions. The Journal of neuroscience : the official journal of the Society for Neuroscience. 11 [PubMed]

Haspel G, O'Donovan MJ. (2011). A perimotor framework reveals functional segmentation in the motoneuronal network controlling locomotion in Caenorhabditis elegans. The Journal of neuroscience : the official journal of the Society for Neuroscience. 31 [PubMed]

Kobourov SG. (2012). Spring embedders and force directed graph drawing algorithms Arxiv Preprint Arxiv:1201.3011.

Koch C. (2004). Biophysics of computation: information processing in single neurons.

Kopell NJ, Gritton HJ, Whittington MA, Kramer MA. (2014). Beyond the connectome: the dynome. Neuron. 83 [PubMed]

Kunert J, Shlizerman E, Kutz JN. (2014). Low-dimensional functionality of complex network dynamics: neurosensory integration in the Caenorhabditis Elegans connectome. Physical review. E, Statistical, nonlinear, and soft matter physics. 89 [PubMed]

Kunert-Graf JM, Shlizerman E, Walker A, Kutz JN. (2017). Multistability and Long-Timescale Transients Encoded by Network Structure in a Model of C. elegans Connectome Dynamics. Frontiers in computational neuroscience. 11 [PubMed]

Lee H et al. (2011). Nictation, a dispersal behavior of the nematode Caenorhabditis elegans, is regulated by IL2 neurons. Nature neuroscience. 15 [PubMed]

Letinic K, Zoncu R, Rakic P. (2002). Origin of GABAergic neurons in the human neocortex. Nature. 417 [PubMed]

Lim E et al. (2010). T3DB: a comprehensively annotated database of common toxins and their targets. Nucleic acids research. 38 [PubMed]

Liu H, Kim J, Shlizerman E. (2018). Functional connectomics from neural dynamics: probabilistic graphical models for neuronal network of Caenorhabditis elegans. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 373 [PubMed]

McMillen T, Holmes P. (2006). An elastic rod model for anguilliform swimming. Journal of mathematical biology. 53 [PubMed]

Mucha PJ, Richardson T, Macon K, Porter MA, Onnela JP. (2010). Community structure in time-dependent, multiscale, and multiplex networks. Science (New York, N.Y.). 328 [PubMed]

Palm G, Aertsen AM, Gerstein GL. (1988). On the significance of correlations among neuronal spike trains. Biological cybernetics. 59 [PubMed]

Rahmati V, Kirmse K, Marković D, Holthoff K, Kiebel SJ. (2016). Inferring Neuronal Dynamics from Calcium Imaging Data Using Biophysical Models and Bayesian Inference. PLoS computational biology. 12 [PubMed]

Raikov I, De Schutter E. (2012). The promise and shortcomings of XML as an interchange format for computational models of biology. Neuroinformatics. 10 [PubMed]

Riffell JA et al. (2014). Sensory biology. Flower discrimination by pollinators in a dynamic chemical environment. Science (New York, N.Y.). 344 [PubMed]

Sarma GP et al. (2018). OpenWorm: overview and recent advances in integrative biological simulation of Caenorhabditis elegans. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 373 [PubMed]

Schatzmann HJ. (1989). The calcium pump of the surface membrane and of the sarcoplasmic reticulum. Annual review of physiology. 51 [PubMed]

Segev I, Koch C. (1989). Methods In Neuronal Modeling.

Shlizerman E, Riffell JA, Kutz JN. (2014). Data-driven inference of network connectivity for modeling the dynamics of neural codes in the insect antennal lobe. Frontiers in computational neuroscience. 8 [PubMed]

Skinner FK. (2012). Cellular-based modeling of oscillatory dynamics in brain networks. Current opinion in neurobiology. 22 [PubMed]

Sporns O, Bullmore ET. (2014). From connections to function: the mouse brain connectome atlas. Cell. 157 [PubMed]

Stephens GJ, Johnson-Kerner B, Bialek W, Ryu WS. (2008). Dimensionality and dynamics in the behavior of C. elegans. PLoS computational biology. 4 [PubMed]

Szigeti B et al. (2014). OpenWorm: an open-science approach to modeling Caenorhabditis elegans. Frontiers in computational neuroscience. 8 [PubMed]

Söhl G, Maxeiner S, Willecke K. (2005). Expression and functions of neuronal gap junctions. Nature reviews. Neuroscience. 6 [PubMed]

Varshney LR, Chen BL, Paniagua E, Hall DH, Chklovskii DB. (2011). Structural properties of the Caenorhabditis elegans neuronal network. PLoS computational biology. 7 [PubMed]

White J, Chalfie M. (1988). The nervous system The nematode Caenorhabditis elegans.

White JG, Southgate E, Thomson JN, Brenner S. (1986). The structure of the nervous system of the nematode Caenorhabditis elegans. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 314 [PubMed]

Wicks SR, Roehrig CJ, Rankin CH. (1996). A dynamic network simulation of the nematode tap withdrawal circuit: predictions concerning synaptic function using behavioral criteria. The Journal of neuroscience : the official journal of the Society for Neuroscience. 16 [PubMed]

Zhang Y et al. (2016). Firing regulation of fast-spiking interneurons by autaptic inhibition EPL. 114

van den Heuvel MP, Hulshoff Pol HE. (2010). Exploring the brain network: a review on resting-state fMRI functional connectivity. European neuropsychopharmacology : the journal of the European College of Neuropsychopharmacology. 20 [PubMed]

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