Biblio

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2020
Peron S, Pancholi R, Voelcker B, Wittenbach JD, H Ólafsdóttir F, Freeman J, Svoboda K.  2020.  Recurrent interactions in local cortical circuits.. Nature. 579(7798):256-59.
2018
Vladimirov N, Wang C, Höckendorf B, Pujala A, Tanimoto M, Mu Y, Yang C-T, Wittenbach J, Freeman J, Preibisch S et al..  2018.  Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function.. Nature Methods. 15(12):1117-1125.
Berens P, Freeman J, Deneux T, Chenkov N, McColgan T, Speiser A, Macke JH, Turaga SC, Mineault P, Rupprecht P et al..  2018.  Community-based benchmarking improves spike rate inference from two-photon calcium imaging data. PLOS Computational Biology. 14(5):e1006157.
2017
Berens P, Freeman J, Deneux T, Chenkov N, McColgan T, Speiser A, Macke JH, Turaga SC, Mineault P, Rupprecht P et al..  2017.  Community-based benchmarking improves spike inference from two-photon calcium imaging data.. PLoS Computational Biology. 14(5):e1006157.
2016
Dunn TW, Mu Y, Narayan S, Randlett O, Naumann EA, Yang C-T, Schier AF, Freeman J, Engert F, Ahrens MB.  2016.  Brain-wide mapping of neural activity controlling zebrafish exploratory locomotion.. eLife.
Harris KD, Quiroga RQuian, Freeman J, Smith SL.  2016.  Improving data quality in neuronal population recordings.. Nature Neuroscience. 19(9):1165-74.
Meng X, Bradley J, Yavus B, Sparks E, Venkataraman S, Liu D, Freeman J, Tsai DB, Amde M, Owen S et al..  2016.  MLlib: Machine learning in Apache Spark.. Journal of Machine Learning Research. 17:1-7.
Ji N, Freeman J, Smith SL.  2016.  Technologies for imaging neural activity in large volumes.. Nature Neuroscience. 19(9):1154-64.
2015
Peron SP, Freeman J, Iyer V, Guo C, Svoboda K.  2015.  A cellular resolution map of barrel cortex activity during tactile behavior.. Neuron. 86(3):783-99.
Branson K, Freeman J.  2015.  Imaging the neural basis of locomotion.. Cell. 163(3):541-2.
Freeman J, Field GD, Li PH, Greschner M, Gunning DE, Mathieson K, Sher A, Litke AM, Paninski L, Simoncelli EP et al..  2015.  Mapping nonlinear receptive field structure in primate retina at single cone resolution.. eLife. 4
Sofroniew NJames, Vlasov YA, Hires SAndrew, Freeman J, Svoboda K.  2015.  Neural coding in barrel cortex during whisker-guided locomotion.. eLife. 4
Freeman J.  2015.  Open source tools for large-scale neuroscience.. Current Opinion in Neurobiology. 32:156-63.
Ziemba CM, Freeman J.  2015.  Representing "stuff" in visual cortex.. Proceedings of the National Academy of Sciences of the United States of America. 112(4):942-3.
Lemon WC, Pulver SR, Höckendorf B, McDole K, Branson KM, Freeman J, Keller PJ.  2015.  Whole-central nervous system functional imaging in larval Drosophila.. Nature Communications. 6:7924.
2014
Vladimirov N, Mu Y, Kawashima T, Bennett DV, Yang C-T, Looger LL, Keller PJ, Freeman J, Ahrens MB.  2014.  Light-sheet functional imaging in fictively behaving zebrafish.. Nature Methods. 11(9):883-4.
Keller PJ, Ahrens MB, Freeman J.  2014.  Light-sheet imaging for systems neuroscience.. Nature Methods. 12(1):27-9.
Freeman J, Vladimirov N, Kawashima T, Mu Y, Sofroniew NJ, Bennett DV, Rosen J, Yang C-T, Looger LL, Ahrens MB.  2014.  Mapping brain activity at scale with cluster computing.. Nature Methods. 11(9):941-950.