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Works (35)

Cellpose3: one-click image restoration for improved cellular segmentation

Nature Methods
2025-03 | Journal article
DOI: 10.1038/s41592-025-02595-5
Contributors: Carsen Stringer; Marius Pachitariu
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Cortical control of innate behavior from subcortical demonstration

2025-02-13 | Preprint
DOI: 10.1101/2025.02.12.637930
Contributors: Jason A. Keller; Iljung S. Kwak; Alyssa K. Stark; Marius Pachitariu; Kristin Branson; Joshua T. Dudman
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Crossref

Rastermap: a discovery method for neural population recordings

Nature Neuroscience
2025-01 | Journal article
DOI: 10.1038/s41593-024-01783-4
Contributors: Carsen Stringer; Lin Zhong; Atika Syeda; Fengtong Du; Maria Kesa; Marius Pachitariu
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A critical initialization for biological neural networks

2025-01-10 | Preprint
DOI: 10.1101/2025.01.10.632397
Contributors: Marius Pachitariu; Lin Zhong; Alexa Gracias; Amanda Minisi; Crystall Lopez; Carsen Stringer
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Crossref

Analysis methods for large-scale neuronal recordings

Science
2024-11-08 | Journal article
DOI: 10.1126/science.adp7429
Contributors: Carsen Stringer; Marius Pachitariu
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Assembloid model to study loop circuits of the human nervous system

2024-10-14 | Preprint
DOI: 10.1101/2024.10.13.617729
Contributors: Yuki Miura; Ji-il Kim; Ovidiu Jurjuț; Kevin W. Kelley; Xiao Yang; Xiaoyu Chen; Mayuri Vijay Thete; Omer Revah; Bianxiao Cui; Marius Pachitariu et al.
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Bridging tuning and invariance with equivariant neuronal representations

2024-08-06 | Preprint
DOI: 10.1101/2024.08.02.606398
Contributors: Judith Hoeller; Lin Zhong; Marius Pachitariu; Sandro Romani
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Towards a simplified model of primary visual cortex

2024-07-02 | Preprint
DOI: 10.1101/2024.06.30.601394
Contributors: Fengtong Du; Miguel Angel Núñez-Ochoa; Marius Pachitariu; Carsen Stringer
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Spike sorting with Kilosort4

Nature Methods
2024-05 | Journal article
DOI: 10.1038/s41592-024-02232-7
Contributors: Marius Pachitariu; Shashwat Sridhar; Jacob Pennington; Carsen Stringer
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Transformers do not outperform Cellpose

2024-04-07 | Preprint
DOI: 10.1101/2024.04.06.587952
Contributors: Carsen Stringer; Marius Pachitariu
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Crossref

Distinct streams for supervised and unsupervised learning in the visual cortex

2024-02-27 | Preprint
DOI: 10.1101/2024.02.25.581990
Contributors: Lin Zhong; Scott Baptista; Rachel Gattoni; Jon Arnold; Daniel Flickinger; Carsen Stringer; Marius Pachitariu
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Cellpose3: one-click image restoration for improved cellular segmentation

2024-02-12 | Preprint
DOI: 10.1101/2024.02.10.579780
Contributors: Carsen Stringer; Marius Pachitariu
Source: check_circle
Crossref

Facemap: a framework for modeling neural activity based on orofacial tracking

Nature Neuroscience
2024-01 | Journal article
DOI: 10.1038/s41593-023-01490-6
Contributors: Atika Syeda; Lin Zhong; Renee Tung; Will Long; Marius Pachitariu; Carsen Stringer
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Crossref

Anatomically distributed neural representations of instincts in the hypothalamus

2023-11-21 | Preprint
DOI: 10.1101/2023.11.21.568163
Contributors: Stefanos Stagkourakis; Giada Spigolon; Markus Marks; Michael Feyder; Joseph Kim; Pietro Perona; Marius Pachitariu; David J. Anderson
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Rastermap: a discovery method for neural population recordings

2023-07-28 | Preprint
DOI: 10.1101/2023.07.25.550571
Contributors: Carsen Stringer; Lin Zhong; Atika Syeda; Fengtong Du; Maria Kesa; Marius Pachitariu
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Crossref

Solving the spike sorting problem with Kilosort

2023-01-07 | Preprint
DOI: 10.1101/2023.01.07.523036
Contributors: Marius Pachitariu; Shashwat Sridhar; Carsen Stringer
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Crossref

Cellpose 2.0: how to train your own model

Nature Methods
2022-12 | Journal article
DOI: 10.1038/s41592-022-01663-4
Contributors: Marius Pachitariu; Carsen Stringer
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Crossref

Facemap: a framework for modeling neural activity based on orofacial tracking

2022-11-04 | Preprint
DOI: 10.1101/2022.11.03.515121
Contributors: Atika Syeda; Lin Zhong; Renee Tung; Will Long; Marius Pachitariu; Carsen Stringer
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Crossref

Structured random receptive fields enable informative sensory encodings

PLOS Computational Biology
2022-10-10 | Journal article
DOI: 10.1371/journal.pcbi.1010484
Contributors: Biraj Pandey; Xuexin Wei; Marius Pachitariu; Bingni W. Brunton; Kameron Decker Harris
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Crossref

Cellpose 2.0: how to train your own model

2022-04-05 | Preprint
DOI: 10.1101/2022.04.01.486764
Contributors: Carsen Stringer; Marius Pachitariu
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Crossref

Electrode pooling can boost the yield of extracellular recordings with switchable silicon probes

Nature Communications
2021-09-02 | Journal article
DOI: 10.1038/s41467-021-25443-4
Contributors: Kyu Hyun Lee; Yu-Li Ni; Jennifer Colonell; Bill Karsh; Jan Putzeys; Marius Pachitariu; Timothy D. Harris; Markus Meister
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Crossref

Hunger or thirst state uncertainty is resolved by outcome evaluation in medial prefrontal cortex to guide decision-making

Nature Neuroscience
2021-07-10 | Journal article
DOI: 10.1038/s41593-021-00850-4
Contributors: Anne-Kathrin Eiselt; Susu Chen; Jim Chen; Jon Arnold; Tahnbee Kim; Marius Pachitariu; Scott M. Sternson
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Crossref

Neuropixels 2.0: A miniaturized high-density probe for stable, long-term brain recordings

Science
2021-04-16 | Journal article
DOI: 10.1126/science.abf4588
Contributors: Nicholas A. Steinmetz; Cagatay Aydin; Anna Lebedeva; Michael Okun; Marius Pachitariu; Marius Bauza; Maxime Beau; Jai Bhagat; Claudia Böhm; Martijn Broux et al.
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Toroidal topology of population activity in grid cells

2021-02-25 | Preprint
DOI: 10.1101/2021.02.25.432776
Contributors: Richard J. Gardner; Erik Hermansen; Marius Pachitariu; Yoram Burak; Nils A. Baas; Benjamin A. Dunn; May-Britt Moser; Edvard I. Moser
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Crossref

Cellpose: a generalist algorithm for cellular segmentation

Nature Methods
2021-01-14 | Journal article
DOI: 10.1038/s41592-020-01018-x
Contributors: Carsen Stringer; Tim Wang; Michalis Michaelos; Marius Pachitariu
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Crossref

Cellpose: a generalist algorithm for cellular segmentation

2020-02-03 | Other
DOI: 10.1101/2020.02.02.931238
Contributors: Carsen Stringer; Tim Wang; Michalis Michaelos; Marius Pachitariu
Source: check_circle
Crossref

High precision coding in visual cortex

2019-06-21 | Other
DOI: 10.1101/679324
Contributors: Carsen Stringer; Michalis Michaelos; Marius Pachitariu
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Retinal outputs depend on behavioural state

2019-05-14 | Other
DOI: 10.1101/638049
Contributors: Sylvia Schröder; Nicholas A. Steinmetz; Michael Krumin; Marius Pachitariu; Matteo Rizzi; Leon Lagnado; Kenneth D Harris; Matteo Carandini
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Spontaneous behaviors drive multidimensional, brainwide activity

Science
2019-04-19 | Journal article
DOI: 10.1126/science.aav7893
Contributors: Carsen Stringer; Marius Pachitariu; Nicholas Steinmetz; Charu Bai Reddy; Matteo Carandini; Kenneth D. Harris
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Crossref

Thirst regulates motivated behavior through modulation of brainwide neural population dynamics

Science
2019-04-19 | Journal article
DOI: 10.1126/science.aav3932
Contributors: William E. Allen; Michael Z. Chen; Nandini Pichamoorthy; Rebecca H. Tien; Marius Pachitariu; Liqun Luo; Karl Deisseroth
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Crossref

Robustness of Spike Deconvolution for Neuronal Calcium Imaging

The Journal of Neuroscience
2018-09-12 | Journal article
DOI: 10.1523/JNEUROSCI.3339-17.2018
Contributors: Marius Pachitariu; Carsen Stringer; Kenneth D. Harris
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Crossref

High-dimensional geometry of population responses in visual cortex

2018-07-22 | Other
DOI: 10.1101/374090
Contributors: Carsen Stringer; Marius Pachitariu; Nicholas Steinmetz; Matteo Carandini; Kenneth D. Harris
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Crossref

Spontaneous behaviors drive multidimensional, brain-wide activity

2018-04-22 | Other
DOI: 10.1101/306019
Contributors: Carsen Stringer; Marius Pachitariu; Nicholas Steinmetz; Charu Bai Reddy; Matteo Carandini; Kenneth D. Harris
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Crossref

Robustness of spike deconvolution for calcium imaging of neural spiking

2017-06-27 | Preprint
DOI: 10.1101/156786
Contributors: Marius Pachitariu; Carsen Stringer; Kenneth D. Harris
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Crossref

State-Dependent Population Coding in Primary Auditory Cortex

The Journal of Neuroscience
2015-02-04 | Journal article
DOI: 10.1523/JNEUROSCI.3318-14.2015
Contributors: Marius Pachitariu; Dmitry R. Lyamzin; Maneesh Sahani; Nicholas A. Lesica
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Peer review (2 reviews for 2 publications/grants)

Review activity for Nature communications (1)
Review activity for Nature methods. (1)
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