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Michael Hines, PhD

Senior Research Scientist in Neuroscience

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Selected Publications

Input of expressed hERG current into a complex neuron in silico cardiac atrial cell: Implications for cardiotoxicity screeningNowak M, Korbel L, Kane A, Panama B, Hines M, Carnevale N, Bett G, Rasmusson R. Input of expressed hERG current into a complex neuron in silico cardiac atrial cell: Implications for cardiotoxicity screening. Biophysical Journal 2023, 122: 382a. DOI: 10.1016/j.bpj.2022.11.2097.
Numerical Integration MethodsHines M, Carnevale T. Numerical Integration Methods. 2022, 2487-2496. DOI: 10.1007/978-1-0716-1006-0_242.
NEURON Simulation EnvironmentHines M, Carnevale T, McDougal R. NEURON Simulation Environment. 2022, 2355-2361. DOI: 10.1007/978-1-0716-1006-0_795.
ModelDBMcDougal R, Wang R, Morse T, Migliore M, Marenco L, Carnevale T, Hines M, Shepherd G. ModelDB. 2022, 2053-2056. DOI: 10.1007/978-1-0716-1006-0_158.
SenseLab: Integration of Multidisciplinary Neuroscience DataShepherd G, Morse T, Marenco L, Cheung K, Carnevale T, Migliore M, McDougal R, Hines M, Miller P. SenseLab: Integration of Multidisciplinary Neuroscience Data. 2022, 3069-3072. DOI: 10.1007/978-1-0716-1006-0_497.
Interfacing a real-time dynamic clamp system with neuron simulation software in living cellsNowak M, Korbel L, Kane A, Panama B, Hines M, Carnevale N, Bett G, Rasmusson R. Interfacing a real-time dynamic clamp system with neuron simulation software in living cells. Biophysical Journal 2022, 121: 391a. DOI: 10.1016/j.bpj.2021.11.818.
Fully-Asynchronous Fully-Implicit Variable-Order Variable-Timestep Simulation of Neural NetworksMagalhães B, Hines M, Sterling T, Schürmann F. Fully-Asynchronous Fully-Implicit Variable-Order Variable-Timestep Simulation of Neural Networks. 2020, 12141: 94-108. PMCID: PMC7302593, DOI: 10.1007/978-3-030-50426-7_8.
An Optimizing Multi-platform Source-to-source Compiler Framework for the NEURON MODeling LanguageKumbhar P, Awile O, Keegan L, Alonso J, King J, Hines M, Schürmann F. An Optimizing Multi-platform Source-to-source Compiler Framework for the NEURON MODeling Language. 2020, 12137: 45-58. PMCID: PMC7302241, DOI: 10.1007/978-3-030-50371-0_4.
NEURON Simulation EnvironmentHines M, Carnevale T, McDougal R. NEURON Simulation Environment. 2019, 1-7. DOI: 10.1007/978-1-4614-7320-6_795-2.
Fully-Asynchronous Cache-Efficient Simulation of Detailed Neural NetworksMagalhães B, Sterling T, Hines M, Schürmann F. Fully-Asynchronous Cache-Efficient Simulation of Detailed Neural Networks. 2019, 11538: 421-434. DOI: 10.1007/978-3-030-22744-9_33.
Exploiting Flow Graph of System of ODEs to Accelerate the Simulation of Biologically-Detailed Neural NetworksMagalhães B, Hines M, Sterling T, Schürmann F. Exploiting Flow Graph of System of ODEs to Accelerate the Simulation of Biologically-Detailed Neural Networks. 2019, 00: 176-187. DOI: 10.1109/ipdps.2019.00028.
Performance Analysis of Computational Neuroscience Software NEURON on Knights Corner Many Core ProcessorsKumbhar P, Sivagnanam S, Yoshimoto K, Hines M, Carnevale T, Majumdar A. Performance Analysis of Computational Neuroscience Software NEURON on Knights Corner Many Core Processors. 2019, 964: 67-76. DOI: 10.1007/978-981-13-7729-7_5.
25th Annual Computational Neuroscience Meeting: CNS-2016Sharpee T, Destexhe A, Kawato M, Sekulić V, Skinner F, Wójcik D, Chintaluri C, Cserpán D, Somogyvári Z, Kim J, Kilpatrick Z, Bennett M, Josić K, Elices I, Arroyo D, Levi R, Rodriguez F, Varona P, Hwang E, Kim B, Han H, Kim T, McKenna J, Brown R, McCarley R, Choi J, Rankin J, Popp P, Rinzel J, Tabas A, Rupp A, Balaguer-Ballester E, Maturana M, Grayden D, Cloherty S, Kameneva T, Ibbotson M, Meffin H, Koren V, Lochmann T, Dragoi V, Obermayer K, Psarrou M, Schilstra M, Davey N, Torben-Nielsen B, Steuber V, Ju H, Yu J, Hines M, Chen L, Yu Y, Kim J, Leahy W, Shlizerman E, Birgiolas J, Gerkin R, Crook S, Viriyopase A, Memmesheimer R, Gielen S, Dabaghian Y, DeVito J, Perotti L, Kim A, Fenk L, Cheng C, Maimon G, Zhao C, Widmer Y, Sprecher S, Senn W, Halnes G, Mäki-Marttunen T, Keller D, Pettersen K, Andreassen O, Einevoll G, Yamada Y, Steyn-Ross M, Alistair Steyn-Ross D, Mejias J, Murray J, Kennedy H, Wang X, Kruscha A, Grewe J, Benda J, Lindner B, Badel L, Ohta K, Tsuchimoto Y, Kazama H, Kahng B, Tam N, Pollonini L, Zouridakis G, Soh J, Kim D, Yoo M, Palmer S, Culmone V, Bojak I, Ferrario A, Merrison-Hort R, Borisyuk R, Kim C, Tezuka T, Joo P, Rho Y, Burton S, Bard Ermentrout G, Jeong J, Urban N, Marsalek P, Kim H, Moon S, Lee D, Lee S, Lee J, Molkov Y, Hamade K, Teka W, Barnett W, Kim T, Markin S, Rybak I, Forro C, Dermutz H, Demkó L, Vörös J, Babichev A, Huang H, Verduzco-Flores S, Dos Santos F, Andras P, Metzner C, Schweikard A, Zurowski B, Roach J, Sander L, Zochowski M, Skilling Q, Ognjanovski N, Aton S, Zochowski M, Wang S, Ouyang G, Guang J, Zhang M, Michael Wong K, Zhou C, Robinson P, Sanz-Leon P, Drysdale P, Fung F, Abeysuriya R, Rennie C, Zhao X, Choe Y, Yang H, Mi Y, Lin X, Wu S, Liedtke J, Schottdorf M, Wolf F, Yamamura Y, Wickens J, Rumbell T, Ramsey J, Reyes A, Draguljić D, Hof P, Luebke J, Weaver C, He H, Yang X, Ma H, Xu Z, Wang Y, Baek K, Morris L, Kundu P, Voon V, Agnes E, Vogels T, Podlaski W, Giese M, Kuravi P, Vogels R, Seeholzer A, Podlaski W, Ranjan R, Vogels T, Torres J, Baroni F, Latorre R, Gips B, Lowet E, Roberts M, de Weerd P, Jensen O, van der Eerden J, Goodarzinick A, Niry M, Valizadeh A, Pariz A, Parsi S, Warburton J, Marucci L, Tamagnini F, Brown J, Tsaneva-Atanasova K, Kleberg F, Triesch J, Moezzi B, Iannella N, Schaworonkow N, Plogmacher L, Goldsworthy M, Hordacre B, McDonnell M, Ridding M, Zapotocky M, Smit D, Fouquet C, Trembleau A, Dasgupta S, Nishikawa I, Aihara K, Toyoizumi T, Robb D, Mellen N, Toporikova N, Tang R, Tang Y, Liang G, Kiser S, Howard J, Goncharenko J, Voronenko S, Ahamed T, Stephens G, Yger P, Lefebvre B, Spampinato G, Esposito E, et Olivier Marre M, Choi H, Song M, Chung S, Lee D, Sompolinsky H, Phillips R, Smith J, Chatzikalymniou A, Ferguson K, Alex Cayco Gajic N, Clopath C, Angus Silver R, Gleeson P, Marin B, Sadeh S, Quintana A, Cantarelli M, Dura-Bernal S, Lytton W, Davison A, Li L, Zhang W, Wang D, Song Y, Park S, Choi I, Shin H, Choi H, Pasupathy A, Shea-Brown E, Huh D, Sejnowski T, Vogt S, Kumar A, Schmidt R, Van Wert S, Schiff S, Veale R, Scheutz M, Lee S, Gallinaro J, Rotter S, Rubchinsky L, Cheung C, Ratnadurai-Giridharan S, Shomali S, Ahmadabadi M, Shimazaki H, Nader Rasuli S, Zhao X, Rasch M, Wilting J, Priesemann V, Levina A, Rudelt L, Lizier J, Spinney R, Rubinov M, Wibral M, Bak J, Pillow J, Zaho Y, Park I, Kang J, Park H, Jang J, Paik S, Choi W, Lee C, Song M, Lee H, Park Y, Yilmaz E, Baysal V, Ozer M, Saska D, Nowotny T, Chan H, Diamond A, Herrmann C, Murray M, Ionta S, Hutt A, Lefebvre J, Weidel P, Duarte R, Morrison A, Lee J, Iyer R, Mihalas S, Koch C, Petrovici M, Leng L, Breitwieser O, Stöckel D, Bytschok I, Martel R, Bill J, Schemmel J, Meier K, Esler T, Burkitt A, Kerr R, Tahayori B, Nolte M, Reimann M, Muller E, Markram H, Parziale A, Senatore R, Marcelli A, Skiker K, Maouene M, Neymotin S, Seidenstein A, Lakatos P, Sanger T, Menzies R, McLauchlan C, van Albada S, Kedziora D, Neymotin S, Kerr C, Suter B, Shepherd G, Ryu J, Lee S, Lee J, Lee H, Lim D, Wang J, Lee H, Jung N, Anh Quang L, Maeng S, Lee T, Lee J, Park C, Ahn S, Moon J, Choi Y, Kim J, Jun S, Lee S, Lee H, Jo S, Jun E, Yu S, Goetze F, Lai P, Kim S, Kwag J, Jang H, Filipović M, Reig R, Aertsen A, Silberberg G, Bachmann C, Buttler S, Jacobs H, Dillen K, Fink G, Kukolja J, Kepple D, Giaffar H, Rinberg D, Shea S, Koulakov A, Bahuguna J, Tetzlaff T, Kotaleski J, Kunze T, Peterson A, Knösche T, Kim M, Kim H, Park J, Yeon J, Kim S, Kang J, Lee C, Spiegler A, Petkoski S, Palva M, Jirsa V, Saggio M, Siep S, Stacey W, Bernar C, Choung O, Jeong Y, Lee Y, Kim S, Jeong M, Lee J, Kwon J, Kralik J, Jahng J, Hwang D, Kwon J, Park S, Kim S, Kim H, Kim P, Yoon S, Lim S, Park C, Miller T, Clements K, Ahn S, Ji E, Issa F, Baek J, Oba S, Yoshimoto J, Doya K, Ishii S, Mosqueiro T, Strube-Bloss M, Smith B, Huerta R, Hadrava M, Hlinka J, Bos H, Helias M, Welzig C, Harper Z, Kim W, Shin I, Baek H, Han S, Richter R, Vitay J, Beuth F, Hamker F, Toppin K, Guo Y, Graham B, Kale P, Gollo L, Stern M, Abbott L, Fedorov L, Giese M, Ardestani M, Faraji M, Preuschoff K, Gerstner W, van Gendt M, Briaire J, Kalkman R, Frijns J, Lee W, Frangou S, Fulcher B, Tran P, Fornito A, Gliske S, Lim E, Holman K, Fink C, Kim J, Mu S, Briggman K, Sebastian Seung H, the EyeWirers, Wegener D, Bohnenkamp L, Ernst U, Devor A, Dale A, Lines G, Edwards A, Tveito A, Hagen E, Senk J, Diesmann M, Schmidt M, Bakker R, Shen K, Bezgin G, Hilgetag C, van Albada S, Sun H, Sourina O, Huang G, Klanner F, Denk C, Glomb K, Ponce-Alvarez A, Gilson M, Ritter P, Deco G, Witek M, Clarke E, Hansen M, Wallentin M, Kringelbach M, Vuust P, Klingbeil G, De Schutter E, Chen W, Zang Y, Hong S, Takashima A, Zamora C, Gallimore A, Goldschmidt D, Manoonpong P, Karoly P, Freestone D, Soundry D, Kuhlmann L, Paninski L, Cook M, Lee J, Fishman Y, Cohen Y, Roberts J, Cocchi L, Sweeney Y, Lee S, Jung W, Kim Y, Jung Y, Song Y, Chavane F, Soman K, Muralidharan V, Srinivasa Chakravarthy V, Shivkumar S, Mandali A, Pragathi Priyadharsini B, Mehta H, Davey C, Brinkman B, Kekona T, Rieke F, Buice M, De Pittà M, Berry H, Brunel N, Breakspear M, Marsat G, Drew J, Chapman P, Daly K, Bradle S, Seo S, Su J, Kavalali E, Blackwell J, Shiau L, Buhry L, Basnayake K, Lee S, Levy B, Baker C, Leleu T, Philips R, Chhabria K. 25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience 2016, 17: 54. PMID: 27534393, PMCID: PMC5001212, DOI: 10.1186/s12868-016-0283-6.
Leveraging a Cluster-Booster Architecture for Brain-Scale SimulationsKumbhar P, Hines M, Ovcharenko A, Mallon D, King J, Sainz F, Schürmann F, Delalondre F. Leveraging a Cluster-Booster Architecture for Brain-Scale Simulations. 2016, 9697: 363-380. DOI: 10.1007/978-3-319-41321-1_19.
ERROR ANALYSIS AND QUANTIFICATION IN NEURON SIMULATIONSCasalegno F, Cremonesi F, Yates S, Hines M, Schürmann F, Delalondre F. ERROR ANALYSIS AND QUANTIFICATION IN NEURON SIMULATIONS. 2016, 1366-1380. DOI: 10.7712/100016.1892.7366.
Parallelizing large networks using NEURON-PythonSeidenstein A, McDougal R, Hines M, Lytton W. Parallelizing large networks using NEURON-Python. BMC Neuroscience 2015, 16: p151. PMCID: PMC4697477, DOI: 10.1186/1471-2202-16-s1-p151.
NTW-MTLin Z, Tropper C, Patoary M, McDougal R, Lytton W, Hines M. NTW-MT. 2015, 157-167. DOI: 10.1145/2769458.2769459.
NEURON Simulation EnvironmentHines M, Carnevale T. NEURON Simulation Environment. 2015, 2012-2017. DOI: 10.1007/978-1-4614-6675-8_795.
Numerical Integration MethodsHines M, Carnevale T. Numerical Integration Methods. 2015, 2115-2124. DOI: 10.1007/978-1-4614-6675-8_242.
ModelDBMcDougal R, Wang R, Morse T, Migliore M, Marenco L, Carnevale T, Hines M, Shepherd G. ModelDB. 2015, 1727-1730. DOI: 10.1007/978-1-4614-6675-8_158.
SenseLab: Integration of Multidisciplinary Neuroscience DataShepherd G, Morse T, Marenco L, Cheung K, Carnevale T, Migliore M, McDougal R, Hines M, Miller P. SenseLab: Integration of Multidisciplinary Neuroscience Data. 2015, 2655-2657. DOI: 10.1007/978-1-4614-6675-8_497.
Calcium regulation of HCN supports persistent activity associated with working memory: a multiscale model of prefrontal cortexNeymotin S, McDougal R, Hines M, Lytton W. Calcium regulation of HCN supports persistent activity associated with working memory: a multiscale model of prefrontal cortex. BMC Neuroscience 2014, 15: p108. PMCID: PMC4124985, DOI: 10.1186/1471-2202-15-s1-p108.
Integrating Systems Biology Markup Language(SBML) with NEURONBulanova A, McDougal R, Neymotin S, Mutai V, Lytton W, Hines M. Integrating Systems Biology Markup Language(SBML) with NEURON. BMC Neuroscience 2014, 15: p144. PMCID: PMC4125051, DOI: 10.1186/1471-2202-15-s1-p144.
A method for multi-simulator reaction-diffusion with NEURONMcDougal R, Hines M, Lytton W. A method for multi-simulator reaction-diffusion with NEURON. BMC Neuroscience 2014, 15: p109. PMCID: PMC4124986, DOI: 10.1186/1471-2202-15-s1-p109.
Numerical Integration MethodsHines M, Carnevale T. Numerical Integration Methods. 2014, 1-12. DOI: 10.1007/978-1-4614-7320-6_242-1.
NEURON Simulation EnvironmentHines M, Carnevale T. NEURON Simulation Environment. 2014, 1-8. DOI: 10.1007/978-1-4614-7320-6_795-1.
ModelDBMcDougal R, Wang R, Morse T, Migliore M, Marenco L, Carnevale T, Hines M, Shepherd G. ModelDB. 2013, 1-4. DOI: 10.1007/978-1-4614-7320-6_158-1.
SenseLab: Integration of Multidisciplinary Neuroscience DataShepherd G, Morse T, Marenco L, Cheung K, Carnevale T, Migliore M, McDougal R, Hines M, Miller P. SenseLab: Integration of Multidisciplinary Neuroscience Data. 2013, 1-3. DOI: 10.1007/978-1-4614-7320-6_497-1.
Reaction-diffusion modeling in the NEURON simulatorMcDougal R, Skolnick Y, Schaff J, Lytton W, Hines M. Reaction-diffusion modeling in the NEURON simulator. BMC Neuroscience 2012, 13: p119. PMCID: PMC3403371, DOI: 10.1186/1471-2202-13-s1-p119.
Fitting single-cell models to voltage- and current-clamp data: Bayesian filteringCarver S, Hines M. Fitting single-cell models to voltage- and current-clamp data: Bayesian filtering. BMC Neuroscience 2010, 11: p72. PMCID: PMC3090962, DOI: 10.1186/1471-2202-11-s1-p72.
Neuronal spike exchange on a Blue Green/P supercomputer: MPI_Allgather vs DCMF_MulticastHines M, Kumar S, Markram H, Schürmann F. Neuronal spike exchange on a Blue Green/P supercomputer: MPI_Allgather vs DCMF_Multicast. BMC Neuroscience 2009, 10: p48. DOI: 10.1186/1471-2202-10-s1-p48.
1 Simulation of Large Networks Technique and ProgressLytton W, Stewart M, Hines M. 1 Simulation of Large Networks Technique and Progress. 2008, 3-17. DOI: 10.1016/b978-012373649-9.50004-1.
2 The Neuron Simulation Environment in Epilepsy ResearchCarnevale N, Hines M. 2 The Neuron Simulation Environment in Epilepsy Research. 2008, 18-33. DOI: 10.1016/b978-012373649-9.50005-3.
Just-in-time connectivity for very large neuronal networksLytton W, Hines M. Just-in-time connectivity for very large neuronal networks. BMC Neuroscience 2007, 8: p7. PMCID: PMC4434409, DOI: 10.1186/1471-2202-8-s2-p7.
Fully implicit parallel simulation of single neuronsHines M, Schuermann F. Fully implicit parallel simulation of single neurons. BMC Neuroscience 2007, 8: p6. PMCID: PMC4436023, DOI: 10.1186/1471-2202-8-s2-p6.
Discrete event simulation in the NEURON environmentHines M, Carnevale N. Discrete event simulation in the NEURON environment. Neurocomputing 2004, 58: 1117-1122. DOI: 10.1016/j.neucom.2004.01.175.
ModelDB: A Resource for Neuronal and Network ModelingDavison A, Morse T, Migliore M, Marenco L, Shepherd G, Hines M. ModelDB: A Resource for Neuronal and Network Modeling. 2003, 99-109. DOI: 10.1007/978-1-4615-1079-6_7.
Senselab: Modeling Heterogenous Data on the Nervous SystemNadkarni P, Mirsky J, Skoufos E, Healy M, Hines M, Miller P, Shepherd G. Senselab: Modeling Heterogenous Data on the Nervous System. 2002, 105-118. DOI: 10.1007/0-306-46903-0_10.
NEOSIM: Portable large-scale plug and play modellingGoddard N, Hood G, Howell F, Hines M, De Schutter E. NEOSIM: Portable large-scale plug and play modelling. Neurocomputing 2001, 38: 1657-1661. DOI: 10.1016/s0925-2312(01)00528-8.
Simulating the Spread of Membrane Potential Changes in Arteriolar NetworksCRANE G, HINES M, NEILD T. Simulating the Spread of Membrane Potential Changes in Arteriolar Networks. Microcirculation 2001, 8: 33-43. PMID: 11296851, DOI: 10.1111/j.1549-8719.2001.tb00156.x.
Integration of Multidisciplinary Sensory DataMiller P, Nadkarni P, Singer M, Marenco L, Hines M, Shepherd G. Integration of Multidisciplinary Sensory Data. Journal Of The American Medical Informatics Association 2001, 8: 34-48. PMID: 11141511, PMCID: PMC134590, DOI: 10.1136/jamia.2001.0080034.
Strategy for Fitting Neuronal Models to Dual Patch Data under Multiple Stimulation ProtocolsShen G, Ye S, Cben W, Midtgaard J, Shepherd G, Hines M. Strategy for Fitting Neuronal Models to Dual Patch Data under Multiple Stimulation Protocols. 2001, 2: 1015-1018. DOI: 10.1109/iembs.2001.1020360.
Computational Analysis of Action Potential Initiation in Mitral Cell Soma and Dendrites Based on Dual Patch RecordingsShen G, Chen W, Midtgaard J, Shepherd G, Hines M. Computational Analysis of Action Potential Initiation in Mitral Cell Soma and Dendrites Based on Dual Patch Recordings. Journal Of Neurophysiology 1999, 82: 3006-3020. PMID: 10601436, DOI: 10.1152/jn.1999.82.6.3006.
The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience dataShepherd G, Mirsky J, Healy M, Singer M, Skoufos E, Hines M, Nadkarni P, Miller P. The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data. Trends In Neurosciences 1998, 21: 460-468. PMID: 9829685, DOI: 10.1016/s0166-2236(98)01300-9.
Compensation for resistance in series with excitable membranesMoore J, Hines M, Harris E. Compensation for resistance in series with excitable membranes. Biophysical Journal 1984, 46: 507-514. PMID: 6498268, PMCID: PMC1435019, DOI: 10.1016/s0006-3495(84)84048-5.

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