How to cite the Neuroscience Gateway
If you used resources available from the NSG for your research, please cite us as follows:
S Sivagnanam, A Majumdar, K Yoshimoto, V Astakhov, A Bandrowski, M. E. Martone, and N. T. Carnevale. Introducing the Neuroscience Gateway, IWSG, volume 993 of CEUR Workshop Proceedings, CEUR-WS.org, 2013.
If specifically EEGLAB software was used via NSG, in addition to citing the above paper you can also cite this paper:
Ramón Martínez-Cancino, Arnaud Delorme, Dung Truong, Fiorenzo Artoni, Kenneth Kreutz-Delgado, Subhashini Sivagnanam, Kenneth Yoshimoto, Amitava Majumdar, Scott Makeig,
The open EEGLAB portal Interface: High-Performance computing with EEGLAB,
NeuroImage,
Volume 224,
2021,
116778,
ISSN 1053-8119,
https://doi.org/10.1016/j.neuroimage.2020.116778
Neuroscience publications, presentations, posters enabled by NSG:
- Sudhanvan IyerKathryn Maxson JonesJill O RobinsonNicole R ProvenzaDominique DuncanGabriel Lázaro-MuñozAmy L McGuireSameer A ShethMary A Majumder (2024) The BRAIN Initiative data-sharing ecosystem: Characteristics, challenges, benefits, and opportunities eLife 13:e94000.
https://doi.org/10.7554/eLife.94000
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- Verónica Expósito Mäki-Marttunen, A. FE
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fluctuations in the brain's internal state," Poster, Program #/Poster #: PSTR421.17/P2, Society for Neuroscience Annual Meeting, Chicago, USA 2024.
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,
Giri P. Krishnan, Python/NEURON code for simulating biophysically realistic thalamocortical
dynamics during sleep, Software Impacts, 21 (2024), 100667, Published:June 03, 2024, DOI:https://doi.org/10.1016/j.simpa.2024.100667
- Veronica Maki-Marttunen, Alexandra Velinov, Sander Nieuwenhui, "Strength of low-frequency EEG phase entrainment to external stimuli is associated with fluctuations in the brain's internal state," bioRxiv 2024.05.23.595436; doi: https://doi.org/10.1101/2024.05.23.595436
- Ting Wang, Mingze Xia, Junhong Wang, Anton Zhilenkov, Jian Wang, Xugang Xi, Lihua Li,
Delay estimation for cortical-muscular interaction with wavelet coherence time lag,
Journal of Neuroscience Methods,
Volume 405,
2024,
110098,
ISSN 0165-0270,
https://doi.org/10.1016/j.jneumeth.2024.110098
- Aanuolowapo Olumuyiwa, Gautam Kumar, "Closed-loop control-based deep brain stimulation for desynchronizing E-I networks, Poster, Society for Neuroscience Annual Meeting, Chicago, Oct 4-10, 2024.
- S Sivagnanam, S Yeu, K Lin, S Sakai, F Garzon, K Yoshimoto, K Prantzalos, D P Upadhyaya, A Majumdar, S S Sahoo, W W Lytton, Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain, Database, Volume 2024, 2024, baae023, https://doi.org/10.1093/database/baae023
- Takács V, Bardóczi Z, Oros A, Major A, Tar L, Berki P, et al. (2024) Synaptic and dendritic architecture of different types of hippocampal somatostatin interneurons. PLoS Biol 22(3): e3002539. https://doi.org/10.1371/journal.pbio.3002539, March 2024
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Influence of neuromuscular electrical stimulation pulse waveform on corticomuscular coupling and the brain functional connectivity network,
Biomedical Signal Processing and Control,
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2024,
105627,
ISSN 1746-8094,
https://doi.org/10.1016/j.bspc.2023.105627.
- Antonio Ivano Triggiani, Sae-Jin Lee, Kaya Scheman, Mark Hallett,
Moving in response to an unseen visual stimulus,
Clinical Neurophysiology,
2023,
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ISSN 1388-2457,
https://doi.org/10.1016/j.clinph.2023.12.009.
- Guijin Li, Gustavo Balbinot, Julio C. Furlan, Sukhvinder Kalsi-Ryan, and Jose Zariffa, "A computational model of surface electromyography signal alterations after spinal cord injury," Journal of Neural Engineering, Volume 20, Number 6, 2023, DOI 10.1088/1741-2552/ad0b8e
- Francesco Cavarretta and Dieter Jaeger, "Modeling synaptic integration of bursty and beta oscillatory inputs in ventromedial motor thalamic neurons in normal and parkinsonian states,"eNeuro 21 November 2023, ENEURO.0237-23.2023; DOI: https://doi.org/10.1523/ENEURO.0237-23.2023
- Salvador Dura-Bernal,Erica Y. Griffith,Annamaria Barczak,Monica N. O'Connell,Tammy McGinnis,Joao V.S. Moreira,Charles E. Schroeder,William W. Lytton,Peter Lakatos,Samuel A. Neymotin, "Data-driven multiscale model of macaque auditory thalamocortical circuits reproduces in vivo dynamics," Cell Reports, Elsevier, VOLUME 42, ISSUE 11, 113378, November 2023
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- Helen J. Huang, Daniel P. Ferris,
Non-invasive brain imaging to advance the understanding of human balance,
Current Opinion in Biomedical Engineering,
2023,
100505,
ISSN 2468-4511,
https://doi.org/10.1016/j.cobme.2023.100505.
(https://www.sciencedirect.com/science/article/pii/S2468451123000612)
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- Happy Inibhunu, Homeira Moradi Chameh, Frances K Skinner, Scott Rich and Taufik A. Valiante, "Hyperpolarization-activated cation channels shape the spiking frequency preference of human cortical layer 5 pyramidal neurons," eNeuro 11 August 2023, ENEURO.0215-23.2023; DOI: https://doi.org/10.1523/ENEURO.0215-23.2023.
- Junjie Li, Yichun Jin, Ruyue Zhao, Yingjie Han, Guillaume Habert,
Using the EEG+VR+LEC evaluation method to explore the combined influence of temperature and spatial openness on the physiological recovery of post-disaster populations,
Building and Environment,
2023,
110637,
ISSN 0360-1323,
https://doi.org/10.1016/j.buildenv.2023.110637.
(https://www.sciencedirect.com/science/article/pii/S0360132323006649)
- Ankur Sinha, Padraig Gleeson, Bóris Marin, Salvador Dura-Bernal, Sotirios Panagiotou, Sharon Crook, Matteo Cantarelli, Robert C. Cannon, Andrew P. Davison, Harsha Gurnani, R. Angus Silver, "The NeuroML ecosystem for standardized multi-scale modeling in neuroscience," bioRxiv 2023.12.07.570537; doi: https://doi.org/10.1101/2023.12.07.570537
- G.Hota, G. Frank, K. Wang, A.Uppal, O. Olajide, J. Liu, S. Bansal, K. Yoshimoto, Q. Wang, S. Deiss, and G. Cauwenberghs,"Reconfigurable Event-Driven Spiking Neuromorphic Computing Near High-Bandwidth Memory," IEEE Biomedical Circuits and Systems Conf. (BioCAS'2023), Toronto Canada, Oct. 19-21, 2023.
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- Franziska Pellegrini, Arnaud Delorme, Vadim Nikulin, Stefan Haufe,
Identifying good practices for detecting inter-regional linear functional connectivity from EEG,
NeuroImage, 2023, 120218, ISSN 1053-8119
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Physiological and introspective antecedents of tics and movements in adults with tic disorders,
Clinical Neurophysiology,
2023,
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Dervinis, M, Crunelli, V. Spike-and-wave discharges of absence seizures in a sleep waves-constrained corticothalamic model. CNS Neurosci Ther. 2023; 00: 1- 12. doi:10.1111/cns.14204
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, M. Kandes, S. Yeu, F. Garzon and DJ. Choi, "Neuroscience Gateway Enabling Large Scale Modeling Data Processing and Dissemination of Neuroscience Software", Poster, Organization for Computational Neurosciences Annual Meeting, Leipzig, Germany, July 15-19, 2023.
- A. Majumdar, S. Makeig, K. Yoshimoto, S. Sivagnanam, A. Delorme, D. Truong, and C. Youn, "NeuroElectroMagnetic data Archive and tools Resources - an open access data, tools and compute resources operating on neuroelectromagnetic data," Poster, Organization for Computational Neurosciences Annual Meeting, Leipzig, Germany, July 15-19, 2023.
- A. Majumdar, S. Sivagnanam, K. Yoshomoto, T. Carnevale, M. Kandes, S. Yeu, DJ Choi, "Neuroscience Gateway Enabling Large Scale Modeling, Data Processing and Neuroscience Software Dissemination," 9th Annual BRAIN Initiative Meeting, 2023 Poster, June 12-13, 2023, Bethesda, MD.
- Authors: Arnaud Delorme, Dung Truong, Choonhan Youn, Yahya Shirazi, Deepa Gupta, Subha Sivagnanam, Claire Stirm, Kenneth Yoshimoto, Russell A. Poldrack, Amit Majumdar, Scott Makeig, "NEMAR: An open access data, tools, and compute resource operating on NeuroElectroMagnetic data," 9th Annual BRAIN Initiative Meeting, 2023 Poster, June 12-13, 2023, Bethesda, MD.
- Aydin Ü, Cañigueral R, Tye C and McLoughlin G (2023) Face processing in young adults with autism and ADHD: An event related potentials study. Front. Psychiatry 14:1080681. doi: 10.3389/fpsyt.2023.1080681
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- Nicholas Tolley, Pedro L.C. Rodrigues, Alexandre Gramfort, Stephanie R. Jones, "Methods and considerations for estimating parameters in biophysically detailed neural models with simulation based inference," bioRxiv, 2023.04, doi DOI: 10.1101/2023.04.17.537118
- Seydanur Reisli, Mick Crosse, Sophie Molholm, "Atypical Tuning of Prediction Certainty in Autism: An EEG study on Anticipatory Processing During a Probabilistic Target Detection Task," bioRxiv 2023.03; DOI: 10.21203/rs.3.rs-2688065/v1
- Gábor Farkas, Luca Tar, Sára Sáray, Szabolcs Káli, "Modelling the intracellular biochemical mechanisms of long-term potentiation in a CA1 pyramidal cell spine head," Poster, Joint Meeting of the Hungarian Neuroscience Society (MITT) and the Austrian Neuroscience Association (ANA) (MITT-ANA, 1-3 February 2023) conference
- Martin Blazsek (Institute of Experimental Medicine, Budapest, Hungary), András Ecker (École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland), Szabolcs Káli (Institute of Experimental Medicine, Budapest, Hungary; Pázmány Péter Catholic University, Budapest, Hungary), "Modeling hippocampal CA3 oscillatory mode transitions," Poster, Joint Meeting of the Hungarian Neuroscience Society (MITT) and the Austrian Neuroscience Association (ANA) (MITT-ANA, 1-3 February 2023) conference
- Luca Tar, Sára Sáray, Szabolcs Káli, "Investigating the role spines play in synaptic integration," Poster, Joint Meeting of the Hungarian Neuroscience Society (MITT) and the Austrian Neuroscience Association (ANA) (MITT-ANA, 1-3 February 2023) conference
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- Prannath Moolchand, Stephanie R. Jones, Michael J. Frank, "Biophysical and Architectural Mechanisms of Subthalamic Theta under Response Conflict," Journal of Neuroscience 1 June 2022, 42 (22) 4470-4487; DOI: 10.1523/JNEUROSCI.2433-19.2022
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- Arnaud Delorme, Dung Truong, Choonhan Youn, Subhashini Sivagnanam, Claire Stirm, Kenneth Yoshimoto, Russell A Poldrack, Amitava Majumdar, Scott Makeig, NEMAR: an open access data, tools and compute resource operating on neuroelectromagnetic data, Database, Volume 2022, 2022, baac096, https://doi.org/10.1093/database/baac096
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- Bologna Luca Leonardo, Smiriglia Roberto, Lupascu Carmen Alina, Appukuttan Shailesh, Davison Andrew P., Ivaska Genrich, Courcol Jean-Denis, Migliore Michele, "The EBRAINS Hodgkin-Huxley Neuron Builder: An online resource for building data-driven neuron models", JOURNAL=Frontiers in Neuroinformatics
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URL=https://www.frontiersin.org/articles/10.3389/fninf.2022.991609
DOI=10.3389/fninf.2022.991609
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Encoding category-level and context-specific phonological information at different stages: An EEG study
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- Ismail Bouziane, Moumita Dasi, Karl J. Fristoni, Cesar Caballero-Gaude, Dipanjan Ray, "Enhanced top-down sensorimotor processing in somatic anxiety", Transl Psychiatry 12, 295 (2022). https://doi.org/10.1038/s41398-022-02061-2
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Affiliations: 1: Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Budapest; 2: Institute of Experimental Medicine, Budapest, "Detailed modelling of synaptic plasticity-related biochemical pathways in a CA1 pyramidal cell spine head", Poster, Dendrites 2022.
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- Cecilia Romaro, Fernando Araujo Najman, William W. Lytton, Antonio C. Roque, Salvador Dura-Bernal; NetPyNE Implementation and Scaling of the Potjans-Diesmann Cortical Microcircuit Model. Neural Comput 2021; 33 (7): 1993–2032. doi: https://doi.org/10.1162/neco_a_01400
- Mai Gamal, Mohamed H. Mousa, Seif Eldawlatly, Sherif M. Elbasiouny,
In-silico development and assessment of a Kalman filter motor decoder for prosthetic hand control,
Computers in Biology and Medicine,
Volume 132,
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104353,
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- Pelot NA, Behrend C, Grill W. Modeling the response of small myelinated axons in a compound nerve to kilohertz frequency signals, J. Neural Engineering, 2017 Mar 31, doi: 10.1088/1741-2552/aa6a5f
- Bielczyk, N., Piskaa, K., Pomecka, M., Todorova, L., Poleszczuk, J., Fory U. (2017). A Switch Between Cooperation and Competition: Hopf Bifurcation as a Mechanism for Decision Making in Presence of Ambivalent Stimuli. Front Comp Neurosci.
(under review)
- Karunamuni, Roshan A., Tyler M. Seibert, Nathan S. White, Linda McEvoy, Nikdokht Farid, James Brewer, Anders M. Dale, Carrie R. McDonald, and Jona A. Hattangadi-Gluth. "Abnormalities in hippocampal volume of glioma patients prior to radiotherapy." Acta Oncologica (2017): 1-4.
- Krishnan, Giri P., Sylvain Chauvette, Isaac Shamie, Sara Soltani, Igor Timofeev, Sydney S. Cash, Eric Halgren, and Maxim Bazhenov. "Cellular and neurochemical basis of sleep stages in the thalamocortical network." eLife 5 (2016): e18607.
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Short SM, Morse TM, McTavish TS, Shepherd GM, and Verhagen, "Respiration Gates Sensory Input Resonses in the Mitral Cell Layer of the Olfactory Bulb," PLoS One, 2016 Dec 22; 11(12);e0168356. doi:10.1371/journal.pone.0168356. eCollection 2016.
- Marianne J Bezaire, Ivan Raikov, Caren Armstrong, Ivan Soltesz, "SimTracker tool and code template to design, manage and analyze neural network model simulations in parallel NEURON", bioRxiv 081927; doi: https://doi.org/10.1101/081927, 2016
- Marianne J Bezaire, Ivan Raikov, Kelly Burk, Dhrumil Vyas, Ivan Soltesz, "Interneuronal mechanisms of hippocampal theta oscillation in a full-scale model of the rodent CA1 circuit," eLife December 2016; 10.7554/eLife.18566; DOI: http://dx.doi.org/10.7554/eLife.18566.
- Samuel A Neymotin, Benjamin A Suter, Salvador Dura-Bernal, Gordon M. G. Shepherd, Michele Migliore, William W. Lytton, "Optimizing computer models of corticospinal neurons to replicatae in vitro dynamics," Journal of Neurophysiology Oct 2016, Vol. 117, pages 148--162, Jn. 00570.2016; DOI: 10.1152/jn.00570.2016
- Evans, Benjamin D., and Konstantin Nikolic. "From bytes to insights with modelling as a service a new paradigm for computational modelling illustrated with PyRhO." In Biomedical Circuits and Systems Conference (BioCAS), 2016 IEEE, pp. 316-319. IEEE, 2016.
- William W. Lytton, Alexandra H. Seidenstein, Salvador Dura-Bernal, Robert A. McDougal, Felix Schurmann and Michael L. Hines
, "Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON," Neural Computation 2016 28:10, 2063-2090 .
- G. P. Krishnan, M. Komarov, S. Skorheim, M. Bazhenov, "Slow-wave sleep improves learning through spike sequence replay", Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
- P. Sanda, P. Malerba, G. P. Krishnan, M. Bazhenov, "Precise Ripple Timing affects Spatio-Temporal pattern of sleep slow oscillations in a Model of Memory Consolidation", Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
-
P. Malerba, A. L. Fodder, M. W. Jones, M. Bazhenov, "Modeling of coordinated sequence replay in ca3 and ca1 during sharp wave-ripples", Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
- Y. Wei, G. P. Krishnan, M. Bazhenov, "Effect of learning cues on sleep-related memory consolidation depends on the phase of sleep slow oscillation," Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
-
Y. Wei, G. P. Krishnan, M. Bazhenov, "Synaptic mechanisms of memory consolidation during NREM sleep", Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
- Short SM, Morse TM, McTavish TS, Shepherd GM, Verhagen JV, "Respiration Gates Sensory Input Responses in the Mitral Cell Layer of the Olfactory Bulb," poster 524. 38th Annual AChemS Meeting, 2016.
- McDougal, Robert A.
and Morse, Thomas M.
and Carnevale, Ted
and Marenco, Luis
and Wang, Rixin
and Migliore, Michele
and Miller, Perry L.
and Shepherd, Gordon M.
and Hines, Michael L.,
"Twenty years of ModelDB and beyond: building essential modeling tools for the future of neuroscience",
journal="Journal of Computational Neuroscience",
year="2016",
pages="1--10",issn="1573-6873",
doi="10.1007/s10827-016-0623-7",
url="http://dx.doi.org/10.1007/s10827-016-0623-7"
- Rumbell, Timothy H., Danel Dragulji., Aniruddha Yadav, Patrick R. Hof, Jennifer I. Luebke, and Christina M. Weaver. "Automated evolutionary optimization of ion channel conductances and kinetics in models of young and aged rhesus monkey pyramidal neurons." Journal of computational neuroscience (2016): 1-26. http://www.ncbi.nlm.nih.gov/pubmed/27106692
- Van Geit W, Gevaert M, Chindemi G, Rossert C, Courcol J, Muller EB, Schurmann F, Segev I and Markram H (2016). BluePyOpt: Leveraging open source software and cloud infrastructure to optimise model parameters in neuroscience. Front. Neuroinform. 10:17. doi: 10.3389/fninf.2016.00017
- R. McDougal; A. Bulanova; W. Lytton, "Reproducibility in Computational Neuroscience Models and Simulations," in IEEE Transactions on Biomedical Engineering , vol. 63, pages. 2021--2035, doi: 10.1109/TBME.2016.2539602
- Hodge, Victoria; Jessop, Mark; Fletcher, Martyn; Weeks, Michael; Turner, Aaron; Jackson, Tom; Ingram, Colin; Smith, Leslie and Austin, Jim", "A Digital Repository and Execution Platform for Interactive Scholarly Publications in Neuroscience", journal="Neuroinformatics", vol. 14, no. 1, pp 23-40, year 2016.
- Dura-Bernal S, Suter BA, Neymotin SA, Kerr CC, Quintana A, Gleeson P, Shepherd GMG, Lytton WW. NetPyNE: a Python package for NEURON to facilitate development and parallel simulation of biological neuronal networks. Computational Neuroscience (CNS), 2016.
- Guet-McCreight A, Camire. O, Topolnik L, Skinner FK. Using A Semi-Automated Strategy To Develop Multi-Compartment Models That Predict Biophysical Properties Of Interneuron Specific 3 (IS3) Cells In Hippocampus. eNeuro. 3(4). 2016, pii: ENEURO.00877-16.2016 .
- Short SM, McTavish TS, Morse TM, Shepherd GM, Verhagen JV," Circuit models identify mechanisms of respiration driven lateral inhibition underlying mitral activity", SfN Nanosymposium 561.08, 2015.
- Shahand, S. (2015). Science gateways for biomedical big data analysis.
- Dura-Bernal S, Majumdar A, Neymotin SA, Sivagnanam S, Francis JT, Lytton WW. A dynamic data-driven approach to closed-loop neuroprosthetics based on multiscale biomimetic brain models. IEEE Conference on High Performance Computing 2015 Workshop: Dynamic Data Driven Applications Systems (DDDAS), 2015.
- Stockton DB, Santamaria F. NeuroManager: a workflow analysis based simulation management engine for computational neuroscience. Frontiers in Neuroinformatics. 2015;9:24. doi:10.3389/fninf.2015.00024.
- S.A Neymotin, B.A. Suter, M. Migliore, S. Dura-Bernal, G.M.G. Shepard, W.W. Lytton, .Optimizing computer models of layer 5 motor cortex pyramidal neurons using somatic whole cell recordings,. Society for Neuroscience Annual Meeting (poster), Chicago, IL, October, 2015.
- Dura-Bernal S, Suter BA, Neymotin SA, Quintana AJ, Gleeson P, Shepherd GMG, Lytton WW. .Normalized cortical depth (NCD) as a primary coordinate system for cell connectivity in cortex: experiment and model.. Society for Neuroscience (SFN), Chicago, IL, October 2015.
- A. Seidenstein, S.A. Neymotin, A. Fesharaki, M.L. Hines, R.A., McDougal, A.S. Bulanova, W.W. Lytton, .Neuronal network bump attractors augmented by calcium up-regulation of lh in multiscale computer model of prefrontal cortex,. Society for Neuroscience Annual Meeting (poster), Chicago, IL, October, 2015.
- C. Mitelut, S. L. Gratiy, D. Denman, J. H. Siegle, S. Durand, K. Godfrey, C. Lee, R.C. Reid, M. Hawrylycz, C. Koch, N.V. Swindle, C. Anastassiou, .Standardizing spike sorting: an In vitro, in silico and In vivo study to develop quantitative metrics for sorting extracellularly recorded spiking activity,. Society for Neuroscience Annual Meeting (poster), Chicago, IL, October, 2015.
- A.H. Seidenstein, R.A. McDougal, M.L. Hines, A.Fesharaki, W.W. Lytton, .Parallelizing large networks using NEURON-python,. Computational Neuroscience (CNS) Annual Meeting (poster), Prague, July, 2015.
- Pelot, Nicole A., Christina E. Behrend, and Warren M. Grill. "Modeling the response of small myelinated and unmyelinated axons to kilohertz frequency signals." In 2015 7th International IEEE/EMBS Conference on Neural Engineering (NER), pp. 406-409. IEEE, 2015.
- Shahand, Shayan, Ammar Benabdelkader, Mohammad Mahdi Jaghoori, Mostapha al Mourabit, Jordi Huguet, Matthan WA Caan, Antoine HC Kampen, and Sílvia D. Olabarriaga. "A data‐centric neuroscience gateway: design, implementation, and experiences." Concurrency and Computation: Practice and Experience 27, no. 2 (2015): 489-506.
- Neymotin SA, Suter BA, Migliore M, Dura-Bernal S, Shepherd GMG, Lytton WW. Optimizing computer models of layer 5 motor cortex pyramidal neurons using somatic whole-cell recordings. Society for Neuroscience (SFN), 2015.
- M. Schirner, S. Rothmeier, V. K. Jirsa, A. R. McIntosh, P. Ritter, An Automated Pipeline for Constructing Personalized Virtual Brains from Multimodal Neuroimaging Data, NeuroImage, March 2015; doi:10.1016/j.neuroimage.2015.03.055
- Rumbell, Timothy, Danel Dragulj., Jennifer Luebke, Patrick Hof, and Christina M. Weaver. "Prediction of ion channel parameter differences between groups of young and aged pyramidal neurons using multi-stage compartmental model optimization." BMC Neuroscience 16, no. 1 (2015): 1.
- Forrest MD, .Simulation of Alcohol Action upon a Detailed Purkinje Neuron Model and a Simpler Surrogate Model that runs >400 times faster.. BMC Neuroscience 2015, 16:27.
- Guet-McCreight A, Camire. O, Topolnik L, Skinner FK. (2016). Poster Presentation: Developing Multi-Compartment Models of Interneuron Specific 3 (IS3) Cells in Hippocampus Using a Semi-Automated Approach. 2-B-17 CAN2016, Canadian Association for Neuroscience, May, 2016.
- T. Rumbell, D. Draguljic, J. I. Luebke, P. R. Hof, C. M. Weaver, .Compartmental model optimization predicts altered channel densities and kinetics in aged versus young pyramidal neurons of rhesus monkey prefrontal cortex., Society for Neuroscience Annual Meeting, Washington D.C., Nov. 15-19, 2014.
- Rumbell, Timothy, Danel Dragulji., Jennifer Luebke, Patrick Hof, and Christina M. Weaver., "Automatic fitness function selection for compartment model optimization." BMC Neuroscience 15, no. Suppl 1 (2014): O5.
- Lee S, Marchionni I, Bezaire MJ, Danielson N, Lovett-Barron M, Losonczy A, Soltesz I. (2014) .GABAergic Basket Cells Differentiate Among Hippocampal Pyramidal Cells. Neuron., 1129-1144, June 4, 2014.
- Ingber L, Pappalepore M, and Stesiak R, .Electroencephalographic fiend influence on calcium momentum waves,. Journal of Theoretical Biology, Volume 343, pp 138-153, February 2014.
Cyberinfrastructure related NSG publications, presentations, posters:
- A. MAJUMDAR
, S. SIVAGNANAM
, K. YOSHIMOTO
, N. CARNEVALE
, M. KANDES
, S. YEU, D. CHOI, "Neuroscience Gateway enabling software dissemination and large scale modeling and data processing", Society for Neuroscience Annual Meeting, Washington D.C., Nov 10-15, 2023
- A. DELORME, D. TRUONG, C. YOUN, S. SIVAGNANAM, C. STIRM, K. YOSHIMOTO, R. A. POLDRACK, A. MAJUMDAR, S. MAKEIG, "Nemar: an open access data, tools and compute resource operating on neuroelectromagnetic data," Society for Neuroscience Annual Meeting, Washington D.C., Nov 10-15, 2023
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, S. Yen, M. Kandes, DJ Choi, and T. Carnevale, ""Neuroscience Gateway - Software Dissemination and Large-Scale Modeling and Data Processing on Supercomputing Resources", PRACTICE & EXPERIENCE IN ADVANCED RESEARCH COMPUTING2023 (PEARC2023), Portland, OR, July 23-27, 2023, ACM, Poster publication.
- Arnaud Delorme, Dung Truong, Choonhan Youn, Subha Sivagnanam, Claire Stirm, Kenneth Yoshimoto, Russell A. Poldrack, Amit Majumdar, Scott Makeig, "NEMAR - A BRAIN Initiative resource for neuroelectromagnetic data, tools and computation," Poster, Society for Neuroscience Annual Meeting, Nov 12-16, 2022, San Diego, CA, USA.
- S. SIVAGNANAM, K. YOSHIMOTO, M. KANDES, S. H. YEU, D. CHOI, N. T. CARNEVALE, A MAJUMDAR, "Neuroscience Gateway - modeling, data processing and software dissemination," Poster, Society for Neuroscience Annual Conferences, Nov 12- 16, 2022, San Diego, CA, USA.
- S. Sivagnanam, K. Yoshimoto, M. Kandes, S. Yeu, D. Choi, T. Carnevale, A. Majumdar, ,"The Neuroscience Gateway Enabling Large Scale Modeling, Data Processing and Dissemination of Software and Tools," Poster, The 8th Annual BRAIN Initiative Meeting, Virtual, June 21-22, 2022
- S. Sivagnanam, K. Yoshimoto, M. Kandes, S. Yeu, T. Carnevale, A. Majumdar, “Neuroscience Gateway Enabling Large Scale Neuroscience Modeling and Data Processing and Software Dissemination”, Poster, PEARC21, July 19-22, 2021, Virtual conference
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, M. Kandes, S. Yeu, T. Carnevale, “Neuroscience Gateway enabling large scale modeling, data processing and software dissemination”, Poster, 30th Annual Computational Neuroscience Meeting, July 3-7, 2021, Virtual conference
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, M. Kandes, S. Yeu, T. Carnevale, “Neuroscience Gateway Enabling Large Scale Neuroscience Computing and Software Dissemination” Poster, BRAIN Initiative PI Meeting, June 15-17, 2021, Virtual Meeting
- S. SIVAGNANAM, K. YOSHIMOTO, A. DELORME, R. MARTINEZ, D. TRUONG, M. KANDES, S. YEU, S. MAKEIG, T. CARNEVALE, A. MAJUMDAR, "Neuroscience Gateway - Large Scale Data Processing and Modeling Using High Performance and High Throughput Computing Resources", SfN Global Connectome, Jan 11-13, 2021.
- S. Goyal, S. Purkayastha, T. Phillips, R. Quick, A. Britt, "Enabling Secure and Effective Biomedical Data Sharing throught Cyberinfrastructure Gateways," Gateways 2020, October 12-23, 2020.
- Sivagnanam S, Yoshimoto K, Kandes M, Yeu SH, Carnevale T, Majumdar A, "Neuroscience Gateway - providing computational and experimental neuroscientists access to neuroscience software for modeling and data processing on HPC and HTC resources," Poster, Gateways2020, October 2020.https://sciencegateways.org/web/gateways2020/welcome; https://osf.io/easjd/
- Majumdar A, Sivagnanam S, Yoshimoto K, Kandes M, Yeu SH, Carnevale T (2020) Neuroscience Gateway Enabling Large Scale Modeling and Data Processing on Supercomputers. Bernstein Conference 2020. doi: doi.org/10.12751/nncn.bc2020.0160
- S. Sivagnanam, K. Yoshimoto, T. Carnevale, D. Nadeau, M. Kandes, T. Petersen, D. Troung, R. Martinez, A. Delorme, S. Makeig, and A. Majumdar. "Neuroscience Gateway Enabling Large Scale Modeling and Data Processing in Neuroscience Research," Poster Paper, July 26-30, 2020 PEARC Virtual Conference.
- Subhashini Sivagnanam, "Neuroscience Gateway", Workshop on Tools and resources for developing and sharing models in computational neuroscience, Virtual CNS 2020 Annual Meeting, 18-22 July 2020.
- Amitava Majumdar, Subhashini Sivagnanam, Kenneth Yoshimoto, Dave Nadeau, Martin Kandes, Trever Petersen, Ramon Martinez, Dung Troung, Arnaud Delorme, Scott Makeig, Ted Carnevale, "Neuroscience gateway enabling modeling and data processing using high performance and high throughput computing resources," 29th Annual Computational Neuroscience Meeting: CNS*2020. BMC Neurosci 21, 54 (2020). https://doi.org/10.1186/s12868-020-00593-1
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Neuroscience Gateway Enabling Large Scale Modeling and Data Processing," Poster 6th Annual BRAIN Initiative Investigators Meeting, June 1-2, 2020, Virtual Conference.
- Amitava Majumdar, Scott Makeig, Arnaud Delorme, Dave Nadeau, Dung Truong, Kenneth Yoshimoto, Ramon Martinez-Cancino, Subhashini Sivagnanam, Russell A. Poldrack, "NEMAR: A Human Neuroelectrophysiological Data, Tools, and Compute Resource," Poster 6th Annual BRAIN Initiative Investigators Meeting, June 1-2, 2020, Virtual Conference.
- NSGPORTAL: High-Performance Computing with EEGLAB. Martínez-Cancino, M., Delorme, A., Truong, D., Artoni, F., Kreutz-Delgado, K., Sivagnanam, S., Yoshimoto, K., Majumdar, A., Makeig, S. Brain, Mind, and Body: Cognitive Neuroengineering for Health and Wellness An IEEE EMBS Symposium and Workshop, Dec. 19-20, 2019, UC San Diego, La Jolla CA.
- A. Majumdar , S. Sivagnanam, K. Yoshimoto (all SDSC), N. T. Carnevale (Yale U), The Neuroscience Gateway Enabling Large Scale Modeling and Data Processing in Neuroscience on Supercomputers, Society for Neuroscience Annual Meeting Poster, October 18-23, 2019, Chicago.
- A. Chourasia, S. Sakai, M. Shapiro and S. Gallo, "Improving Science Gateways usage reporting for XSEDE", Poster, PEARC '19: Proceedings of the Practice and Experience in Advanced Research Computing on Rise of the Machines (learning)July 2019 Article No.: 109 Pages 1-4 https://doi.org/10.1145/3332186.3338096
- S. Sivagnanam, K. Yoshimoto, N.T. Carnevale, A. Majumdar, The Neuroscience Gateway: Enabling large scale modeling and data processing in neuroscience, Poster, Society for Neuroscience Annual Meeting, November 6, 2018, San Diego CA.
- Patrice Calegari, Marc Levrier, and Pawel Balczynski. 2019. Web Portals for High-performance Computing: A Survey. ACM Trans. Web 13, 1, Article 5 (February 2019), 36 pages. DOI: https://doi.org/10.1145/3197385
- P. S. Kumbhar, S. Sivagnanam, K. Yoshimoto, M. Hines, T. Carnevale and A. Majumdar,
"Performance Analysis of Computational Neuroscience Software NEURON on Knights Corner
Many Core Processors," Software Challenges to Exascale Computing, Dec 13-14, 2018, Delhi,
India, Springer Communications in Computer and Information Science (CCIS) .
- S. Sivagnanam, K. Yoshimoto, N.T. Carnevale, A. Majumdar, "The Neuroscience Gateway: enabling large scale modeling and data processing in
neuroscience", Poster Society for Neuroscience (SfN) Annual Meeting, San Diego, CA, Nov 3-7, 2018.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, A. Peyser, "High Performance Computing Resources for
Parallel Simulations and Data Analysis: NSG and HPAC," NSG Satellite Workshop at Society for Neuroscience (SfN) Annual Meeting, San Diego, CA, Nov 3-7, 2018.
- K. Yoshimoto, "Neuroscience Gateway - Scalable infrastructure for computationally-intensive cognitive neuroscience", Tutorial at CogSci18, Wisconsin, MD, July 25-28, 2018.
- S. Sivagnanam, K. Yoshimoto, T. Carnevale, A. Majumdar, "The Neuroscience Gateway - Enabling Large Scale Modeling and Data Processing in Neuroscience," Practice & Experience in Advanced Research Computing PEARC18, Pittsburgh, PA, July 22-26, 2018.
- M. Pierce, M. Miller, A. Majumdar, S. Pamidighantam, S. Marru, "Introduction to Science Gateways for New Users," Tutorial, Practice & Experience in Advanced Research Computing PEARC18, Pittsburgh, July 22-26, 2018.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Neuroscience Gateway and Large Scale Neural Systems Simulations and Tools," Workshop, Organization of Computational Neuroscience (CNS) Annual Conference, Seattle, WA, July 13-18, 2018.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Neuroscience Gateway - Enabling Large Scale Simulations and Data Processing and Dissemination of Neuroscience Tools/Software", Poster, Organization of Computational Neuroscience (CNS) Annual Conference, Seattle, WA, July 13-18, 2018.
- S. Sivagnanam, "Enabling computational modeling and big data analysis through Neuroscience Gateway," Neural Interfaces Conference, Minneapolis June 2018.
- S. Sivagnanam, A. Majumdar, K. Yoshimoto, T. Carnevale, "Neuroscience Gateway: Enabling Easy Path to Supercomputing for Neuroscience Research and Education," Poster, Neural Interfaces Conference 2018, Minneapolis, MN, June 25-27, 2018.
- A. Wagner, K Pezzoli, A. Majumdar, J. Bottum, N. Wilkins-Diehr, "Science Gateways and their impact on research and scholarship nationally and internationally," Internet 2, Global Summit, May 6-9, 2018, San Diego, CA.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Neuroscience gateway - enabling easy path to supercomputing for neuroscience research and education," BRAIN Initiative PI Meeting, Bethesda, MD, April 9-14, 2018.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto (UCSD), N.T. Carnevale (Yale U.), A. Peyser (Jülich Supercomputer Center), "High Performance Computing (HPC) Resources for Parallel Simulations and Data Analysis: NSG and HPAC," Satellite Workshop, Society for Neuroscience Annual Meeting 2017, Washington D.C., November 2017.
- A. Majumdar, S. Sivagnanam, K. Yoshomoto, N.T. Carnevale, "The Neuroscience Gateway Portal: high performance computing for neuroscientists", Poster, Society for Neuroscience Annual Meeting, Nov 10-15, 2017, Washington D.C.
- A. Majumdar, "Neuroscience Gateway," August, 2017, NEUROCOMP17, Madison, WI.
- A. Majumdar, S. Sivagnanam, T. Carnevale, "Neuroscience Gateway: Enabling Developers and Users to Utilize Open High Performance Computing Resources for Large Scale Simulations," Workshop Computational Neuroscience Annual Meeting (CNS 2017), July 2017, Antwerp, Belgium.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, N.T. Carneval, "The Neuroscience Gateway Portal - High Performance Computing for Neuroscientists," Computational Neuroscience Annual Meeting (CNS 2017) Poster Presentation, Antwerp, Belgium, July 2017.
- A. Majumdar, "Science Gateways - Access to HPC", University of California Los Angeles, April, 2017.
- A. Majumdar, "HPC Resources and Science Gateways,", University of California Davis, March, 2017.
- Supun Nakandala, Suresh Marru, Marlon Pierce, Sudhakar Pamidighantam, Kenneth Yoshimoto, Terri Schwartz, Subhashini Sivagnanam, Amit Majumdar and Mark Miller, "Apache Airavata Sharing Service: A Tool for Enabling User Collaboration in Science Gateways," PEARC17, July 09-13, 2017, new Orleans, LA, USA. ACM ISBN 978-1-4503-5272-7/17/07.
- S. Strande, H. Cai, T. Cooper, K. Flammer, C. Irving, G. Laszewski, A. Majumdar, D. Mishin, P. Papadopoulos, W. Pfeiffer, R. Sinkovits, M. Tatineni, R. Wagner, F. Wang, N. Wilkins-Diehr, N. Wolter, and M. Norman, "Comet - Tales from the Long Tail - Two Years In and 10,000 Users Later," PEARC17, July 09-13, 2017, new Orleans, LA, USA. ACM ISBN 978-1-4503-5272-7/17/07. http://dx.doi.org/10.1145/3093338.3093383
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A. Majumdar, S. Sivagnanam, T. Carnevale, K. Yoshimoto, "The Neuroscience Gateway - Enabling Large-Scale Neuroscience Simulations and Data Processing Using Supercomputers, " Poster, Third Annual BREAIN Initiative PI Meeting, Bethesda, MD, Dec 12-14, 2016.
- S. Sivagnanam, A. Majumdar, P. Kumbhar, M. Hines, K. Yoshomoto, T. Carnevale, "Neuroscience Gateway - Understanding the scaling behavior of NEURON application, " Poster, SC16, Salt Lake City, Utah, November, 2016.
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A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnecvale, "Understanding Collaborative Cyberinfrastructure Need of Neuroscientists - Survey Results", White Paper, September, 2016.
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S. Sivagnanam, A. Majumdar, K. Yoshimoto, T. Carnevale, "NSG-R: Programmatic Access to Neuroscience Applications on HPC," Poster XSEDE16, Miami, July 17-21, 2016.
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A. Majumdar, S. Sivagnanam, K. Yoshimoto, N. T. Carnevale, P. Gleeson, R. A. Silver, "Seamless Integration of Neuroscience Models and Tools with High Performance Computing, " Poster, Society for Neuroscience Annual Meeting, San Diego, Nov 12-16, 2016.
- Majumdar, A., Sivagnanam, S., Yoshimoto, K., Carnevale, N. T., Quintana, A.,
Gleeson, P. and Silver, R. A., "NSG-R Programmatic access to neuroscience applications", poster, Workshop Collaborative Development of Data-Driven Models of Neural Systems, HHMI Janelia Research Campus, Virginia, USA, Sept 18-21, 2016.
- Majumdar A, Sivagnanam S, Carnevale NT, Yoshimoto K, Gleeson P, Quintana A and Silver RA (2016), "Neuroscience Gateway - Cyberinfrastructure Providing Supercomputing Resources for Large Scale Computational Neuroscience Research," Front. Neuroinform. Conference Abstract: Neuroinformatics 2016. Neuroinformatics 2016, Reading, United Kingdom, 3 Sep - 4 Sep, 2016. doi: 10.3389/conf.fninf.2016.20.00008
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Understanding the Evolving Cyberinfrastructure Needs of the Neuroscience Community," Proceedings of the XSEDE16 Conference on Diversity, Big Data, and Science at Scale (XSEDE16). ACM, New York, NY, USA, , Article 45 , 7 pages. DOI: http://dx.doi.org/10.1145/2949550.2949657
- S. Sivagnanam, A. Majumdar, K. Yoshimoto, T. Carnevale, "NSG-R: Programmatic Access to Neuroscience Applications," (poster) Proceedings XSEDE16, Miami, July 17-21, 2016.
- S. Dura-Bernal, S. A. Neymotin, W. L. Lytton, A. Majumdar, and S. Sivagnanam, " A Dynamic Data-Driven Approach to Closed-loop Neuroprosthetics Based on Multiscale Biomimetic Brain Models," Dynamic data Driven Application Systems Workshop, IEEE International Conference on High Performance Computing, Dec. 16-19, 2015, Bengaluru, India.
- S. Sivagnanam, A. Majumdar, P. Kumbhar, M. Hines, K. Yoshimoto, T. Carnevale, .Neuroscience Gateway . Enabling HPC for Computational Neuroscience,. Supercomputing 2015 (poster), Austin, TX, November, 2015.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, P. Gleeson, R.A. Silver, N. T. Carnevale, Seamless integration of neuroscience models and tools with high
performance computing. Poster, Society for Neuroscience Annual Meeting, Chicago, IL, Oct. 17 - 21, 2015.
- B. Lytton, M. Hines, .NEURON and the Neuroscience Gateway Portal,. HPC Workshop, 2015 Computational Neuroscience Annual Meeting, Prague, July, 2015.
- M. Miller, T. Schwartz, P. Hoover, K. Yoshimoto, S. Sivagnanam, A. Majumdar, "The CIPRES Workbench: A Flexible Framework for Creating Science Gateways", Proceedings XSEDE15, St. Louis, MO, July 26-30, 2015.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, .Neuroscience Gateway . Seamless Access to XSEDE High Performance Computing Resources for the Computational Neuroscience Community,. XSEDE 15 Conference (poster), St. Louis, MO, July 26-30, 2015.
- Amit Majumdar, Subhashini Sivagnanam, Kenneth Yoshimoto, Vadim Astakhov, Anita Bandrowski, Maryann Martone, Ted Carnevale, The Neuroscience Gateway Portal - High Performance Computing Made Easy, Poster, Computational Neuroscience (CNS) 2014 Annual Meeting, Quebec City, Canada, July 26-31, 2014.
- S. Sivagnanam, A. Majumdar, K. Yoshimoto, V. Astakhov, A. Bandrowski, M. Martone, and N. T. Carnevale, "Early experiences in developing and managing the neuroscience gateway," Journal of Concurrency and Computation: Practice and Experience,Vol 27, Issue 2, pages 473-488, 2015 UR: http://dx.doi.org/10.1002/cpe.3283.
- Amit Majumdar, Subhashini Sivagnanam, Kenneth Yoshimoto, Vadim Astakhov, Anita Bandrowski, Maryann Martone, Ted Carnevale, " High performance computing in neuroscience via the Neuroscience Gateway Portal", Poster, Society for Neuroscience Annual Meeting, Washington D.C, Nov. 15 - 19, 2014.
- Ted Carnevale, Amit Majumdar, Subhashini Sivagnanam, Kenneth Yoshimoto, Vadim Astakhov, Anita Bandrowski, Maryann Martone, .The Neuroscience Gateway Portal - High Performance Computing Made Easy,. BMC Neuroscience, Vol 15, No 1, 2014, doi="10.1186/1471-2202-15-S1-P101", url="http://dx.doi.org/10.1186/1471-2202-15-S1-P101.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, V. Astakhov, A. Bandrowski, M. Martone, Ted Carnevale "The Neuroscience Gateway Portal: facilitating access to high performance computing resources," Poster, Society for Neuroscience Annual Meeting, San Diego, Nov. 9-13, 2013.
- S. Sivagnanam, K. Yoshimoto, A. Majumdar, N. T. Carnevale, V. Astakhov, M. Martone, A. Bandrowski, "A Neuroscience Gateway: Software and Implementation," Proceedings XSEDE13 Gateway to Discovery, San Diego, CA, July 22-25, 2013.
- S. Sivagnanam, A. Majumdar, K. Yoshimoto, N. T. Carnevale, V. Astakhov, A. Bandrowski, M. Martone, "Introducing The Neuroscience Gateway," Proceedings International Workshop on Science Gateways , Zurich, Switzerland, June 3-5, 2013.
- S. Sivagnanam, K. K. Yoshimoto, V. Astakhov, A. E. Bandrowski, M. E. Martone, N.T. Carnevale, A. Majumdar, "A Neuroscience Gateway for High Performance Computing," Poster,Society for Neuroscience Annual Meeting, New Orleans, October 13-17, 2012.
Educational projects/publications and Training/workshops:
- Kristina Bohn, Masters Thesis, " EEG Correlates of Internal Mechanisms of Effect Perception in Basketball", Master's programme: Human Movement Analytics: Biomechanics, Motor Control, and Learning (Master of Science), Institution: Department of Psychology and Sport Science at Justus-Liebig-University in Giessen, Germany, March 2024
- Society for Neuroscience (SfN) 2023, Washington D.C., USA, Neuroscience Gateway Satellite Workshop Neuroscience Gateway - Software Dissemination, Large Scale Modeling, Data Analysis on Supercomputers (agenda and registration link) , Saturday, November 11 , 2023, 8:30 AM - 12:30 PM
- A. Majumdar, S. Sivagnanam, T. Carnevale, and K. Yoshimoto, "Neuroscience Gateway Enabling Neuroscience Software Dissemination and Large-Scale Neuronal Modeling and Data Processing on Supercomputers", Organization of Computational Neurosciences Annual Meeting Workshop, Leipzig, Germany, July 15-19, 2023.
- Peter Rose, Marty Kandes, Nicole Wolter, "HSISTEM, SDSC and NSG workshop on Jupyter Notebook for HSI Institution faculties"; October 21, 2022
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, T. Carnevale, "Neuroscience Gateway - Enabling Large Scale Modeling, Data Processing and Dissemination of Software", Society for Neuroscience (SfN) Annual Meeting Satellite Workshop, November 12, 2022
- A. MAJUMDAR, A. DELORME, S. SIVAGNANAM, K. YOSHIMOTO, E. E. SERRANO, "Expanding neuroscience education and research at Hispanic-serving institutions through faculty development workshops," Poster, Society for Neuroscience Annual Conference, Nov 12-16, 2022, San Diego, CA, USA.
- Charles C.H. Cohen, Ph.D Dissertation, "Biophysical Properties of Saltating
Potentials in Myelinated Axons," Utrecht University, December 2020.
- Ismail Bouziane, "Investigating Anxiety Associated Changes in Effective Connectivity in Sensorimotor Cortices", MA Thesis, Psychology, Ismail Bouziane, 2021, Basque Center on Brain, Cognition and language (BCBL) in partnership with the University of the Basque Country.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, Martin Kandes, Steven Yeu, Neuroscience Gateway Training Webinar on Developers Platform and Neuroscience Software Dissemination, March 18, 2021.
- Guet-McCreight, Alexandre Thomas Liam, "Interneuron Specific (Dis)Inhibitory Control in the CA1 Hippocampus: A Single-cell Computational Study Spanning In Vitro and In Vivo Virtual Network Contexts," Ph.D thesis, 2020, Advisor Frances K. Skinner. Dept. Phsiology, University of Toronto, https://tspace.library.utoronto.ca/handle/1807/100949
- A. Majumdar, S. Sivagnanam, K. Yoshimoto, Ted Carnevale, Arnaud Delorme, Neuroscience Gateway Using NEURON and EEGLAB - Training Webinar, Friday, November 20, 2020.
- Methods and tools for characterizing transient phase-amplitude coupling in neural oscillations.
Ph.D. dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy in Electrical Engineering (Intelligent Systems, Robotics, and Control) by Ramon Martinez Cancino, November, 2020.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto (all SDSC), T. Carnevale, Yale U., Alex Peyser, Jülich Supercomputing Center, Society for Neuroscience Annual Conference Workshop," NSG and HPAC Large Scale Modeling and Data Analysis - NSG and HPAC," October 10, 2019, Chicago, IL.
- Daniel Tovbis, "Automatic Segmentation and Three-Dimensional
Reconstruction of Fascicles in Peripheral Nerves ," MS Thesis, University of Toronto, 2019.
- A. Majumdar, S. Sivagnanam (all SDSC), T. Carnevale, Yale U., Alex Peyser, Jülich Supercomputingg
Center, Society for Neuroscience Annual Conference Workshop, NSG and HPA Large Scale Simulations and Data Processing, October 19, 2019, Chicago, IL.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto (all SDSC), T. Carnevale, Yale U., Alex Peyser, Jülich Supercomputing Center, Society for Neuroscience Annual Conference Workshop - High Performance Computing Resources for Parallel Simulations and Data Analysis - NSG and HPAC, November 3rd, 2018, San Diego CA.
- Paolo Muratore, University of Rome, Italy, MS Thesis, "Maximum Likelihood Methods for Biologically Plausible Learning in Recurrent Spiking Networks", October, 2019.
- NSG was used as a part of EEGLAB workshop in December, 2018.
- ohnson, J.T. (December 17, 2018). The Neurobehavioral Effects of Sensorimotor Dissonance on Grasp-Related Motor Tasks. Georgia Institute of Technology, Atlanta, GA: Applied Physiology Thesis Proposal
- NIH BRAIN Initiative Summer Course (1 weeks; 7/14-7/20 2019): Models and Neurobiology, Interdisciplinary Research Training in Computational Neuroscience for PhD students, post-docs, medical students, residents, and faculty
- Dura-Bernal S, McDougal R, Lytton WW. (2018) Multiscale modeling from molecular level to large network level (using NEURON, RxD and NetPyNE). Computational Neuroscience (CNS 2018) (Tutorial) - http://www.cnsorg.org/cns-2018-tutorials#T2
- Dura-Bernal, S. Development of large scale data-driven network models in NetPyNE, a high-level interface to NEURON. Computation Neuroscience (CNS 2018) Workshop on "Developing, standardizing and sharing large scale cortical network models" (Workshop talk)
- VII Latin American School on Computational Neuroscience (LASCON) (2018) Institute of Mathematics and Statistics, University of Sao Paulo, Brazil (Course)
- NSG was used during the Human Brain Project School on the Brain
Simulation Platform, Palermo 17-21 Sep. 2018.
https://www.humanbrainproject.eu/en/follow-hbp/events/the-brain-simulation-platform-hbp-school/
- NSG was used by the students attending the Computational Neuroscience Training at the University of Missouri, June, 2018.
- NSG was used as a part of a EU HBP workshop titled, "Neuroscience for ICT: Applications to Computation and Robotics", in KALKSCHEUNE BERLIN, GERMANY, July 4-6, 2018.
https://education.humanbrainproject.eu/web/2nd-hbp-curriculum-workshop-series/ict-workshop
- NSG was used by the students of the course " Neuroscience Simulation" taught by EPFL researchers, May, 2018
- Neuroscience Information Framework (NIF) organized webinar on the Neuroscience Gateway Project, Subhashini Sivagnanam, September 29, 2017.
- A. Majumdar, S. Sivagnanam (all SDSC), T. Carnevale, Yale U., The Neuroscience Gateway and Large Scale Neural Systems Simulations and Tools, CNS 2018 Workshop, 17 July, 2018, Seattle, WA
- NSG was used at the NEURON Workshop at the Janelia Research Campus, September, 2017.
- Masters Thesis: Effects of Abstraction and Assumptions on Modeling Motoneuron Pool Output, Allen, John Michael, Write State University, 2017
- A. Majumdar, S. Sivagnanam (all SDSC), T. Carnevale, Yale U., Alex Peyser, Jülich Supercomputing Center, High Performance Computing Resources for Parallel Simulations and Data Analysis: NSG and HPAC, Society for Neuroscience Annual Conference Workshop, 11 November 2017, Washington D.C.
- A. Majumdar, S. Sivagnanam (all SDSC), T. Carnevale, Yale U., Enabling Developers and Users to Utilize Open High Performance Computing Resources for Large Scale Simulatioons, 20 July, 2017, CNS 2017, Antwerp, Belgium
- NSG webinar tutorial was given for the NIH BRAIN Initiative Summer Course on Models and Neurobiology. at University of Missouri, Columbia, MO, June 13, 2016. 24 pre- and post-docs and faculties attended this workshop which was funded by NIH R25 Research and Training grant
http://engineering.missouri.edu/neuro/outreach/nih-neuroscience-course/
- Dervinis, Martynas 2016. Pathophysiological mechanisms of absence epilepsy: a computational modelling study. PhD Thesis, Cardiff University
- The Hir, N. (2016). Digital models of the optical stimulation of neurons assisted by plasmonic nanoparticles (Masters thesis, École Polytechnique de Montréal). https://publications.polymtl.ca/2351/
- NSG was used at a tutorial at the New Mexico State University, March 2015.
- S. Sahand, .Science Gateways for biomedical big data analysis,. Ph. D Thesis, 2015, University of Amsterdam, http://hdl.handle.net/11245/1.490613
- Alexandre Guet McCreight, .Predicting Cell-Type Specific Active Properties by Developing Multi-Compartment Models Using Databases and Electrophysiological Feature Constraints: Application to Interneuron Specific 3 (IS3) Cells in the Hippocampus., Master.s Thesis, University of Toronto, August, 2015.
- Kait Folweiler, .Computational Model of the Dentate Gyrus,. Ph.D qualifying research, 2015, University of Pennsylvania.
- Bill Lytton, Michael Hines, NEURON and the Neuroscience Gateway Portal, CNS2015, July 23, 2015, Prague
- Another research project, titled, .Dendritic Excitation Dependence on Synaptic Democracy in CA1 Pyramidal Neurons,. Chung, P, George, V, and Hermiz, J used the NSG for their research. Ref. http://www.isn.ucsd.edu/courses/bggn260/2013/reports/Chung_George_Hermiz.pdf (2014)
- NSG was used in a class project by graduate student Nikki Pelot, Biomedical Engineering, Duke University, 2014.
- A. Majumdar, S. Sivagnanam, K. Yoshimoto (all SDSC), T. Carnevale, Yale U., Running Parallel Simulations on HPC Resources , July 30, 2014, CNS 2014, Quebec City, Canada
- The NSG was used by attendees of the Open Source Brain Hackathon in London in November, 2013 (http://www.opensourcebrain.org/projects/osb/wiki/Hackathon2013), where users tested large scale models of cortical networks on the NSG provided resources during the meeting. This was reported by Padraig Gleeson who ran the workshop and is from the Department of Neuroscience, Physiology and Pharmacology, University College of London.
- A. Majumdar, S. Sivagnanam (all SDSC), T. Carnevale, Yale U., Using the Neuroscience Gateway Protal for Parllele Simulation, Society for Neuroscience Annual Conference Workshop, November 9, 2013, San Diego, CA