2024
Automating literature screening and curation with applications to computational neuroscience
Ji Z, Guo S, Qiao Y, McDougal R. Automating literature screening and curation with applications to computational neuroscience. Journal Of The American Medical Informatics Association 2024, 31: 1463-1470. PMID: 38722233, PMCID: PMC11187430, DOI: 10.1093/jamia/ocae097.Peer-Reviewed Original ResearchComputational neuroscienceLanguage modeling techniquesNatural language processingDomain-specific resourcesComputational neuroscience approachNeuroscience workMetadata annotationsModel discoveryLanguage processingComputing elementsNeuron modelModelDBMetadataRelevant metadataStandardized metadataAuthor submission
2022
Modernizing the NEURON Simulator for Sustainability, Portability, and Performance
Awile O, Kumbhar P, Cornu N, Dura-Bernal S, King JG, Lupton O, Magkanaris I, McDougal RA, Newton AJH, Pereira F, Săvulescu A, Carnevale NT, Lytton WW, Hines ML, Schürmann F. Modernizing the NEURON Simulator for Sustainability, Portability, and Performance. Frontiers In Neuroinformatics 2022, 16: 884046. PMID: 35832575, PMCID: PMC9272742, DOI: 10.3389/fninf.2022.884046.Peer-Reviewed Original ResearchComputer architectureDomain-specific languageCloud platformSoftware distributionScientific workflowsDeveloper baseSource compilerHardware platformTime compilationBuild systemSimulation engineContinuous integrationSimulation platformComputational neuroscienceNew usersNEURON simulatorSimulation performanceBiological modelingUsersPlatformArchitectureWorkflowBetter documentationBackendGPU
2016
Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON
Lytton WW, Seidenstein AH, Dura-Bernal S, McDougal RA, Schürmann F, Hines ML. Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON. Neural Computation 2016, 28: 2063-2090. PMID: 27557104, PMCID: PMC5295685, DOI: 10.1162/neco_a_00876.Peer-Reviewed Original ResearchConceptsHigh-performance computersLarge networksData management approachNew simulation technologyNeuronal network simulationsTypes of networksSimulation run timeMore big dataNumber of nodesNeuroscience GatewayBig dataData storageNetwork simulationComputational neuroscienceSimulation technologyHybrid networkNEURON simulatorNetwork sizeRun timeNetworkSimulation setupSuch simulationsFire neuronsMajor research initiativeNodes