High-Performance Computing in Neuroscience for Data-Driven Discovery, Integration, and Dissemination

Bouchard, Kristofer E.; Aimone, James B.; Chun, Miyoung; Dean, Thomas; Denker, Michael; Diesmann, Markus; Donofrio, David D.; Frank, Loren M.; Kasthuri, Narayanan; Koch, Chirstof; Ruebel, Oliver; Simon, Horst D.; Sommer, Friedrich T.; ., Prabhat

doi:10.1016/j.neuron.2016.10.035

Title: High-Performance Computing in Neuroscience for Data-Driven Discovery, Integration, and Dissemination

Journal Article · Wed Nov 02 00:00:00 EDT 2016 · Neuron

DOI:https://doi.org/10.1016/j.neuron.2016.10.035· OSTI ID:1332918

Bouchard, Kristofer E. ^[1]; Aimone, James B. ^[2]; Chun, Miyoung ^[3]; Dean, Thomas ^[4]; Denker, Michael ^[5]; Diesmann, Markus ^[6]; Donofrio, David D. ^[7]; Frank, Loren M. ^[8]; Kasthuri, Narayanan ^[9]; Koch, Chirstof ^[10]; Ruebel, Oliver ^[7]; Simon, Horst D. ^[11]; Sommer, Friedrich T. ^[12]; ., Prabhat ^[13]

Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Biolgoical Systems and Engineering Division; Univ. of California, San Francisco, CA (United States). Kavli Inst. for Fundamental Neuroscience; Univ. of California, Berkeley, CA (United States). Helen Wills Neuroscience Inst.
Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Center for Computing Research
The Kavli Foundation, Oxnard, CA (United States)
Google Research, Mountain View, CA (United States)
Julich Research Centre (Germany). Inst. of Neuroscience and Medicine (INM-6) and INst. for Advanced Simulation (IAS-6)
Julich Research Centre (Germany). Inst. of Neuroscience and Medicine (INM-6) and INst. for Advanced Simulation (IAS-6); RWTH Aachen Univ. (Germany). Dept. of Psychiatry and Dept. of Physics
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Computational Research Division
Univ. of California, San Francisco, CA (United States). Kavli Inst. for Fundamental Neuroscience, Howard Hughes Medical Inst. and Dept. of Physiology
Argonne National Lab. (ANL), Argonne, IL (United States). Nanoscience Division; Univ. of Chicago, IL (United States). Dept. of Neurobiology
Allen Inst. for Brain Science, Seattle, WA (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Univ. of California, Berkeley, CA (United States). Redwood Center for Theoretical Neuroscience
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). NERSC

© 2016 Opportunities offered by new neuro-technologies are threatened by lack of coherent plans to analyze, manage, and understand the data. High-performance computing will allow exploratory analysis of massive datasets stored in standardized formats, hosted in open repositories, and integrated with simulations.

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Research Organization:: Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE National Nuclear Security Administration (NNSA)

Grant/Contract Number:: AC04-94AL85000; AC02-05CH11231

OSTI ID:: 1332918

Alternate ID(s):: OSTI ID: 1461976

Report Number(s):: SAND2016-11039J; PII: S0896627316307851; TRN: US1700177

Journal Information:: Neuron, Vol. 92, Issue 3; ISSN 0896-6273

Publisher:: Cell Press - ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

Citation Metrics:

Cited by: 21 works

Citation information provided by
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References (11)

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Challenges in Reproducibility, Replicability, and Comparability of Computational Models and Tools for Neuronal and Glial Networks, Cells, and Subcellular Structures Manninen, Tiina; Aćimović, Jugoslava; Havela, Riikka Frontiers in Neuroinformatics, Vol. 12 https://doi.org/10.3389/fninf.2018.00020	journal	May 2018
NeuroChaT: A toolbox to analyse the dynamics of neuronal encoding in freely-behaving rodents in vivo Islam, Md Nurul; Martin, Seán K.; Aggleton, John P. Wellcome Open Research, Vol. 4 https://doi.org/10.12688/wellcomeopenres.15533.1	journal	January 2019
NeuroSuites-BNs: An open web framework for massive Bayesian networks focused on neuroscience Michiels, Mario; Larrañaga, Pedro; Bielza, Concha https://doi.org/10.1101/2020.02.04.934174	posted_content	July 2020
BayeSuites: An open web framework for massive Bayesian networks focused on neuroscience Michiels, Mario; Larrañaga, Pedro; Bielza, Concha Neurocomputing, Vol. 428 https://doi.org/10.1016/j.neucom.2020.11.066	journal	March 2021
The SONATA data format for efficient description of large-scale network models Dai, Kael; Hernando, Juan; Billeh, Yazan N. PLOS Computational Biology, Vol. 16, Issue 2 https://doi.org/10.1371/journal.pcbi.1007696	journal	February 2020
Reproducibility and Comparability of Computational Models for Astrocyte Calcium Excitability Manninen, Tiina; Havela, Riikka; Linne, Marja-Leena Frontiers in Neuroinformatics, Vol. 11 https://doi.org/10.3389/fninf.2017.00011	journal	February 2017
Arkheia: Data Management and Communication for Open Computational Neuroscience Antolík, Ján; Davison, Andrew P. Frontiers in Neuroinformatics, Vol. 12 https://doi.org/10.3389/fninf.2018.00006	journal	March 2018

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