Biblio

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2021
Eiselt A-K, Chen S, Chen J, Arnold J, Kim T, Pachitariu M, Sternson SM.  2021.  Hunger or thirst state uncertainty is resolved by outcome evaluation in medial prefrontal cortex to guide decision-making.. Nature Neuroscience. 24(7):907-912.
Steinmetz NA, Aydın Ç, Lebedeva A, Okun M, Pachitariu M, Bauza M, Beau M, Bhagat J, Böhm C, Broux M et al..  2021.  Neuropixels 2.0: A miniaturized high-density probe for stable, long-term brain recordings.. Science. 372(6539)
Siegle JH, Jia X, Durand S, Gale S, Bennett C, Graddis N, Heller G, Ramirez TK, Choi H, Luviano JA et al..  2021.  Survey of spiking in the mouse visual system reveals functional hierarchy.. Nature. 592(7852):86-92(7852):86-92.
2020
Schröder S, Steinmetz NA, Krumin M, Pachitariu M, Rizzi M, Lagnado L, Harris KD, Carandini M.  2020.  Arousal modulates retinal output.. Neuron. 107(3):487.
Stringer C, Michaelos M, Pachitariu M.  2020.  Cellpose: a generalist algorithm for cellular segmentation. bioRxiv.
2019
Stringer C, Michaelos M, Pachitariu M.  2019.  High precision coding in visual cortex. BioRxiv. :679324.
Stringer C, Pachitariu M, Steinmetz NA, Carandini M, Harris KD.  2019.  High-dimensional geometry of population responses in visual cortex.. Nature. 571(7765):361-65.
Stringer C, Pachitariu M, Steinmetz NA, Reddy CBai, Carandini M, Harris KD.  2019.  Spontaneous behaviors drive multidimensional, brain-wide population activity.. Science. 364(6437):255.
Allen WE, Chen MZ, Pichamoorthy N, Tien RH, Pachitariu M, Luo L, Deisseroth K.  2019.  Thirst regulates motivated behavior through modulation of brainwide neural population dynamics.. Science. 364(6437):253.
2018
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.
Stringer C, Pachitariu M.  2018.  Computational processing of neural recordings from calcium imaging data.. Current Opinion in Neurobiology. 55:22-31.
Pachitariu M, Stringer C, Harris KD.  2018.  Robustness of spike deconvolution for neuronal calcium imaging.. The Journal of Neuroscience : the official journal of the Society for Neuroscience. 38(37):7976-85.
Dipoppa M, Ranson A, Krumin M, Pachitariu M, Carandini M, Harris KD.  2018.  Vision and locomotion shape the interactions between neuron types in mouse visual cortex.. Neuron. 98(3):602-15.
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.
Jun JJ, Steinmetz NA, Siegle JH, Denman DJ, Bauza M, Barbarits B, Lee AK, Anastassiou CA, Andrei A, Aydın Ç et al..  2017.  Fully integrated silicon probes for high-density recording of neural activity.. Nature. 551(7679):232-236.
Pachitariu M, Stringer C, Harris KD.  2017.  Robustness of spike deconvolution for calcium imaging of neural spiking.. bioRxiv. :156786.
Pachitariu M, Stringer C, Dipoppa M, Schröder S, L Rossi F, Dalgleish H, Carandini M, Harris KD.  2017.  Suite2p: beyond 10,000 neurons with standard two-photon microscopy.. bioRxiv. :061507.
Pachitariu M, Sahani M.  2017.  Visual motion computation in recurrent neural networks.. bioRxiv. :099101.
2016
Pachitariu M, Steinmetz NA, Kadir SN, Carandini M, Harris KD.  2016.  Fast and accurate spike sorting of high-channel count probes with KiloSort.. Neural Information Processing Systems (NIPS 2016).
Stringer C, Pachitariu M, Steinmetz NA, Okun M, Bartho P, Harris KD, Sahani M, Lesica NA.  2016.  Inhibitory control of correlated intrinsic variability in cortical networks.. eLife. 5
Stringer C, Pachitariu M, Steinmetz NA, Okun M, Bartho P, Harris KD, Sahani M, Lesica NA.  2016.  Inhibitory control of correlated intrinsic variability in cortical networks. Elife. 5:e19695.
2015
Poort J, Khan AG, Pachitariu M, Nemri A, Orsolic I, Krupic J, Bauza M, Sahani M, Keller GB, Mrsic-Flogel TD et al..  2015.  Learning enhances sensory and multiple non-sensory representations in primary visual cortex.. Neuron. 86(6):1478-90.
Pachitariu M, Lyamzin DR, Sahani M, Lesica NA.  2015.  State-dependent population coding in primary auditory cortex.. The Journal of Neuroscience : the official journal of the Society for Neuroscience. 35(5):2058-73.
2013
Pachitariu M, Packer AM, Pettit N, Dalgleish H, Häusser M, Sahani M.  2013.  Extracting regions of interest from biological images with convolutional sparse block coding.. Neural Information Processing Systems (NIPS 2013).
Pachitariu M, Petreska B, Sahani M.  2013.  Recurrent linear models of simultaneously-recorded neural populations.. Neural Information Processing Systems (NIPS 2013).