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The SONATA data format for efficient description of large-scale network models.
Dai K, Hernando J, Billeh YN, Gratiy SL, Planas J, Davison AP, Dura-Bernal S, Gleeson P, Devresse A, Dichter BK, Gevaert M, King JG, Van Geit WAH, Povolotsky AV, Muller E, Courcol JD, Arkhipov A. Dai K, et al. Among authors: gleeson p. PLoS Comput Biol. 2020 Feb 24;16(2):e1007696. doi: 10.1371/journal.pcbi.1007696. eCollection 2020 Feb. PLoS Comput Biol. 2020. PMID: 32092054 Free PMC article.
The neocortical microcircuit collaboration portal: a resource for rat somatosensory cortex.
Ramaswamy S, Courcol JD, Abdellah M, Adaszewski SR, Antille N, Arsever S, Atenekeng G, Bilgili A, Brukau Y, Chalimourda A, Chindemi G, Delalondre F, Dumusc R, Eilemann S, Gevaert ME, Gleeson P, Graham JW, Hernando JB, Kanari L, Katkov Y, Keller D, King JG, Ranjan R, Reimann MW, Rössert C, Shi Y, Shillcock JC, Telefont M, Van Geit W, Diaz JV, Walker R, Wang Y, Zaninetta SM, DeFelipe J, Hill SL, Muller J, Segev I, Schürmann F, Muller EB, Markram H. Ramaswamy S, et al. Among authors: gleeson p. Front Neural Circuits. 2015 Oct 8;9:44. doi: 10.3389/fncir.2015.00044. eCollection 2015. Front Neural Circuits. 2015. PMID: 26500503 Free PMC article. No abstract available.
Toward standard practices for sharing computer code and programs in neuroscience.
Eglen SJ, Marwick B, Halchenko YO, Hanke M, Sufi S, Gleeson P, Silver RA, Davison AP, Lanyon L, Abrams M, Wachtler T, Willshaw DJ, Pouzat C, Poline JB. Eglen SJ, et al. Among authors: gleeson p. Nat Neurosci. 2017 May 25;20(6):770-773. doi: 10.1038/nn.4550. Nat Neurosci. 2017. PMID: 28542156 Free PMC article.
A Commitment to Open Source in Neuroscience.
Gleeson P, Davison AP, Silver RA, Ascoli GA. Gleeson P, et al. Neuron. 2017 Dec 6;96(5):964-965. doi: 10.1016/j.neuron.2017.10.013. Neuron. 2017. PMID: 29216458 Free article.
Geppetto: a reusable modular open platform for exploring neuroscience data and models.
Cantarelli M, Marin B, Quintana A, Earnshaw M, Court R, Gleeson P, Dura-Bernal S, Silver RA, Idili G. Cantarelli M, et al. Among authors: gleeson p. Philos Trans R Soc Lond B Biol Sci. 2018 Sep 10;373(1758):20170380. doi: 10.1098/rstb.2017.0380. Philos Trans R Soc Lond B Biol Sci. 2018. PMID: 30201843 Free PMC article.
Code Generation in Computational Neuroscience: A Review of Tools and Techniques.
Blundell I, Brette R, Cleland TA, Close TG, Coca D, Davison AP, Diaz-Pier S, Fernandez Musoles C, Gleeson P, Goodman DFM, Hines M, Hopkins MW, Kumbhar P, Lester DR, Marin B, Morrison A, Müller E, Nowotny T, Peyser A, Plotnikov D, Richmond P, Rowley A, Rumpe B, Stimberg M, Stokes AB, Tomkins A, Trensch G, Woodman M, Eppler JM. Blundell I, et al. Among authors: gleeson p. Front Neuroinform. 2018 Nov 5;12:68. doi: 10.3389/fninf.2018.00068. eCollection 2018. Front Neuroinform. 2018. PMID: 30455637 Free PMC article. Review.
NetPyNE, a tool for data-driven multiscale modeling of brain circuits.
Dura-Bernal S, Suter BA, Gleeson P, Cantarelli M, Quintana A, Rodriguez F, Kedziora DJ, Chadderdon GL, Kerr CC, Neymotin SA, McDougal RA, Hines M, Shepherd GM, Lytton WW. Dura-Bernal S, et al. Among authors: gleeson p. Elife. 2019 Apr 26;8:e44494. doi: 10.7554/eLife.44494. Elife. 2019. PMID: 31025934 Free PMC article.
Open Source Brain: A Collaborative Resource for Visualizing, Analyzing, Simulating, and Developing Standardized Models of Neurons and Circuits.
Gleeson P, Cantarelli M, Marin B, Quintana A, Earnshaw M, Sadeh S, Piasini E, Birgiolas J, Cannon RC, Cayco-Gajic NA, Crook S, Davison AP, Dura-Bernal S, Ecker A, Hines ML, Idili G, Lanore F, Larson SD, Lytton WW, Majumdar A, McDougal RA, Sivagnanam S, Solinas S, Stanislovas R, van Albada SJ, van Geit W, Silver RA. Gleeson P, et al. Neuron. 2019 Aug 7;103(3):395-411.e5. doi: 10.1016/j.neuron.2019.05.019. Epub 2019 Jun 11. Neuron. 2019. PMID: 31201122 Free PMC article.
342 results