Brain Modeling ToolKit: An open source software suite for multiscale modeling of brain circuits
Dai, Kael, Gratiy, Sergey L, Billeh, Yazan N, Xu, Richard, Cai, Binghuang, Cain, Nicholas, Rimehaug, Atle E, Stasik, Alexander J, Einevoll, Gaute T, Mihalas, Stefan, Koch, Christof, Arkhipov, Anton
Published in PLoS computational biology (30.11.2020)
Published in PLoS computational biology (30.11.2020)
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Journal Article
BioNet: A Python interface to NEURON for modeling large-scale networks
Gratiy, Sergey L, Billeh, Yazan N, Dai, Kael, Mitelut, Catalin, Feng, David, Gouwens, Nathan W, Cain, Nicholas, Koch, Christof, Anastassiou, Costas A, Arkhipov, Anton
Published in PloS one (02.08.2018)
Published in PloS one (02.08.2018)
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Journal Article
The SONATA data format for efficient description of large-scale network models
Dai, Kael, Hernando, Juan, Billeh, Yazan N, Gratiy, Sergey L, Planas, Judit, Davison, Andrew P, Dura-Bernal, Salvador, Gleeson, Padraig, Devresse, Adrien, Dichter, Benjamin K, Gevaert, Michael, King, James G, Van Geit, Werner A H, Povolotsky, Arseny V, Muller, Eilif, Courcol, Jean-Denis, Arkhipov, Anton
Published in PLoS computational biology (24.02.2020)
Published in PLoS computational biology (24.02.2020)
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Journal Article
Systematic Integration of Structural and Functional Data into Multi-scale Models of Mouse Primary Visual Cortex
Billeh, Yazan N., Cai, Binghuang, Gratiy, Sergey L., Dai, Kael, Iyer, Ramakrishnan, Gouwens, Nathan W., Abbasi-Asl, Reza, Jia, Xiaoxuan, Siegle, Joshua H., Olsen, Shawn R., Koch, Christof, Mihalas, Stefan, Arkhipov, Anton
Published in Neuron (Cambridge, Mass.) (06.05.2020)
Published in Neuron (Cambridge, Mass.) (06.05.2020)
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Journal Article
Fully integrated silicon probes for high-density recording of neural activity
Jun, James J, Steinmetz, Nicholas A, Siegle, Joshua H, Denman, Daniel J, Bauza, Marius, Barbarits, Brian, Lee, Albert K, Anastassiou, Costas A, Andrei, Alexandru, Aydın, Çağatay, Barbic, Mladen, Blanche, Timothy J, Bonin, Vincent, Couto, João, Dutta, Barundeb, Gratiy, Sergey L, Gutnisky, Diego A, Häusser, Michael, Karsh, Bill, Ledochowitsch, Peter, Lopez, Carolina Mora, Mitelut, Catalin, Musa, Silke, Okun, Michael, Pachitariu, Marius, Putzeys, Jan, Rich, P Dylan, Rossant, Cyrille, Sun, Wei-Lung, Svoboda, Karel, Carandini, Matteo, Harris, Kenneth D, Koch, Christof, O'Keefe, John, Harris, Timothy D
Published in Nature (London) (09.11.2017)
Published in Nature (London) (09.11.2017)
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Journal Article
On the estimation of population-specific synaptic currents from laminar multielectrode recordings
Gratiy, Sergey L, Devor, Anna, Einevoll, Gaute T, Dale, Anders M
Published in Frontiers in neuroinformatics (20.12.2011)
Published in Frontiers in neuroinformatics (20.12.2011)
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Journal Article
In vivo stimulus-induced vasodilation occurs without IP3 receptor activation and may precede astrocytic calcium increase
Nizar, Krystal, Uhlirova, Hana, Tian, Peifang, Saisan, Payam A, Cheng, Qun, Reznichenko, Lidia, Weldy, Kimberly L, Steed, Tyler C, Sridhar, Vishnu B, MacDonald, Christopher L, Cui, Jianxia, Gratiy, Sergey L, Sakadzić, Sava, Boas, David A, Beka, Thomas I, Einevoll, Gaute T, Chen, Ju, Masliah, Eliezer, Dale, Anders M, Silva, Gabriel A, Devor, Anna
Published in The Journal of neuroscience (08.05.2013)
Published in The Journal of neuroscience (08.05.2013)
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Journal Article
From Maxwell's equations to the theory of current‐source density analysis
Gratiy, Sergey L., Halnes, Geir, Denman, Daniel, Hawrylycz, Michael J., Koch, Christof, Einevoll, Gaute T., Anastassiou, Costas A., Poirazi, Panayiota
Published in The European journal of neuroscience (01.04.2017)
Published in The European journal of neuroscience (01.04.2017)
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Journal Article
In vivo alterations in calcium buffering capacity in transgenic mouse model of synucleinopathy
Reznichenko, Lidia, Cheng, Qun, Nizar, Krystal, Gratiy, Sergey L, Saisan, Payam A, Rockenstein, Edward M, González, Tanya, Patrick, Christina, Spencer, Brian, Desplats, Paula, Dale, Anders M, Devor, Anna, Masliah, Eliezer
Published in The Journal of neuroscience (18.07.2012)
Published in The Journal of neuroscience (18.07.2012)
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Journal Article
A comprehensive numerical simulation of Io’s sublimation-driven atmosphere
Walker, Andrew C., Gratiy, Sergey L., Goldstein, David B., Moore, Chris H., Varghese, Philip L., Trafton, Laurence M., Levin, Deborah A., Stewart, Bénédicte
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
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Journal Article
Rassvet: Backward Monte Carlo radiative transfer in spherical-shell planetary atmospheres
Gratiy, Sergey L., Levin, Deborah A., Walker, Andrew C.
Published in Icarus (New York, N.Y. 1962) (01.03.2010)
Published in Icarus (New York, N.Y. 1962) (01.03.2010)
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Journal Article
Multi-wavelength simulations of atmospheric radiation from Io with a 3-D spherical-shell backward Monte Carlo radiative transfer model
Gratiy, Sergey L., Walker, Andrew C., Levin, Deborah A., Goldstein, David B., Varghese, Philip L., Trafton, Laurence M., Moore, Chris H.
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
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Journal Article
In Vivo Alterations in Calcium Buffering Capacity in Transgenic Mouse Model of Synucleinopathy
Reznichenko, L., Cheng, Q., Nizar, K., Gratiy, S. L., Saisan, P. A., Rockenstein, E. M., Gonzalez, T., Patrick, C., Spencer, B., Desplats, P., Dale, A. M., Devor, A., Masliah, E.
Published in The Journal of neuroscience (18.07.2012)
Published in The Journal of neuroscience (18.07.2012)
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Journal Article
In vivo Stimulus-Induced Vasodilation Occurs without IP 3 Receptor Activation and May Precede Astrocytic Calcium Increase
Nizar, Krystal, Uhlirova, Hana, Tian, Peifang, Saisan, Payam A., Cheng, Qun, Reznichenko, Lidia, Weldy, Kimberly L., Steed, Tyler C., Sridhar, Vishnu B., MacDonald, Christopher L., Cui, Jianxia, Gratiy, Sergey L., Sakadžić, Sava, Boas, David A., Beka, Thomas I., Einevoll, Gaute T., Chen, Ju, Masliah, Eliezer, Dale, Anders M., Silva, Gabriel A., Devor, Anna
Published in The Journal of neuroscience (08.05.2013)
Published in The Journal of neuroscience (08.05.2013)
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Journal Article
Increased Calcium Influx and Decreased Buffering Capacity of Intracellular Stores Underlie Neuropathology Induced by Over-Expression of α-Synuclein
Reznichenko, Lidia, Cheng, Qun, Nizar, Kristal, Gratiy, Sergey L., Saisan, Payam A., Rockenstein, Edward M., González, Tanya, Patrick, Cristina, Spencer, Brian, Desplats, Paula, Dale, Anders M., Devor, Anna, Masliah, Eliezer
Published in Biophysical journal (31.01.2012)
Published in Biophysical journal (31.01.2012)
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Journal Article
A comprehensive numerical simulation of Ioa[tm]s sublimation-driven atmosphere
Walker, Andrew C, Gratiy, Sergey L, Goldstein, David B, Moore, Chris H, Varghese, Philip L, Trafton, Laurence M, Levin, Deborah A, Stewart, BA[copynA[copydicte
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
Published in Icarus (New York, N.Y. 1962) (01.05.2010)
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Journal Article
Systematic Integration of Structural and Functional Data into Multi-Scale Models of Mouse Primary Visual Cortex
Billeh, Yazan N, Cai, Binghuang, Gratiy, Sergey L, Dai, Kael, Iyer, Ramakrishnan, Gouwens, Nathan W, Abbasi-Asl, Reza, Jia, Xiaoxuan, Siegle, Joshua H, Olsen, Shawn R, Koch, Christof, Mihalas, Stefan, Arkhipov, Anton
Published in bioRxiv (18.10.2019)
Published in bioRxiv (18.10.2019)
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Paper
The SONATA Data Format for Efficient Description of Large-Scale Network Models
Dai, Kael, Hernando, Juan, Billeh, Yazan N, Gratiy, Sergey L, Planas, Judit, Davison, Andrew P, Dura-Bernal, Salvador, Gleeson, Padraig, Devresse, Adrien, Dichter, Benjamin K, Gevaert, Michael, King, James G, Werner A H Van Geit, Povolotsky, Arseny V, Muller, Eilif, Jean-Denis Courcol, Arkhipov, Anton
Published in bioRxiv (20.09.2019)
Published in bioRxiv (20.09.2019)
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