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bioRxiv 2023.03.14.532674
Functional connectomics reveals general wiring rule in mouse visual cortex.
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bioRxiv 2023.03.13.531369
Binary and analog variation of synapses between cortical pyramidal neurons.
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Elife 11, e76120, 2022
State-dependent pupil dilation rapidly shifts visual feature selectivity.
Franke, K., Willeke, K.F., Ponder, K., Galdamez, M., Zhou, N., Muhammad, T., Patel, S., Froudarakis, E., Reimer, J., Sinz, F.H., Tolias, A.S.,
Nature 610, 128–134, 2022
Sustained deep-tissue voltage recording using a fast indicator evolved for two-photon microscopy.
Liu, Z., Lu, X., Villette, V., Gou, Y., Colbert, K.L., Lai, S., Guan, S., Land, M.A., Lee, J., Assefa, T., Zollinger, D.R., Korympidou, M.M., Vlasits, A.L., Pang, M.M., Su, S., Cai, C., Froudarakis, E., Zhou, N., Patel, S.S., Smith, C.L., Ayon, A., Bizouard, P., Bradley, J., Franke, K., Clandinin, T.R., Giovannucci, A., Tolias, A.S., Reimer, J., Dieudonné, S., St-Pierre, F.,
Cell S0092-8674(22)00916–3, 2022
Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity.
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Cell 185, 1082-1100.e24.,2022a
Increased Reliability of Visually-Evoked Activity in Area V1 of the MECP2-Duplication Mouse Model of Autism.
Ash, R.T., Palagina, G., Fernandez-Leon, J.A., Park, J., Seilheimer, R., Lee, S., Sabharwal, J., Reyes, F., Wang, J., Lu, D., Sarfraz, M., Froudarakis, E., Tolias, A.S., Wu, S.M., Smirnakis, S.M.,
J Neurosci 42, 6469–6482., 2022
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Elife 10, e73783., 2021
Visuomotor Control in Mice and Primates.
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Petascale neural circuit reconstruction: automated methods.
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bioRxiv 2021.08.04.455162, 2021
Rotation-invariant clustering of neuronal responses in primary visual cortex.
Ustyuzhaninov, I., Cadena, S.A., Froudarakis, E., Fahey, P.G., Walker, E.Y., Cobos, E., Reimer, J., Sinz, F.H., Tolias, A.S., Bethge, M., and Ecker, A.S.
Eighth International Conference on Learning Representations 2020
Object manifold geometry across the mouse cortical visual hierarchy.
Froudarakis, E., Cohen, U., Diamantaki, M., Walker, E.Y., Reimer, J., Berens, P., Sompolinsky, H., and Tolias, A.S.
bioRxiv, 2020.08.20.258798., 2020
EASE: EM-Assiste Source Extraction from calcium imaging data.
Zhou, P., Reimer, J., Zhou, D., Pasarkar, A., Kinsella, I., Froudarakis, E., Yatsenko, D.V., Fahey, P.G., Bodor, A., Buchanan, J.
bioRxiv, 2020.03.25.007468., 2020
Inference of synaptic connectivity and external variability in neural microcircuits.
Baker, C., Froudarakis, E., Yatsenko, D., Tolias, A.S., and Rosenbaum, R.
Comput Neurosci 48, 123–147., 2020
The Rac-GEF Tiam1 Promotes Dendrite and Synapse Stabilization of Dentate Granule Cells and Restricts Hippocampal-Dependent Memory Functions.
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The Visual Cortex in Context.
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Annual Review of Vision Science 5, 2019
Target specific functions of EPL interneurons in olfactory circuits.
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Nature Communications 10, 1–14., 2019
Layer 4 of mouse neocortex differs in cell types and circuit organization between sensory areas.
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Nature Communications 10, 1–12., 2019
Inception loops discover what excites neurons most using deep predictive models.
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Nat. Neurosci. 22, 2060–2065., 2019
A global map of orientation tuning in mouse visual cortex.
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bioRxiv, 745323., 2019
How well do deep neural networks trained on object recognition characterize the mouse visual system?
Cadena, S.A., Sinz, F.H., Muhammad, T., Froudarakis, E., Cobos, E., Walker, E.Y., Reimer, J., Bethge, M., Tolias, A., and Ecker, A.S.
In NeurIPS Neuro AI Workshop., 2019
Stimulus domain transfer in recurrent models for large scale cortical population prediction on video
Sinz, H. F., Ecker, A., Fahey, G. P., Walker, Y. E., Cobos, E., Froudarakis, E., Yatsenko, D., Pitkow, X., Reimer, J., Tolias, A.S.
Neural Information Processing Systems, 2018
A rotation-equivariant convolutional neural network model of primary visual cortex
Ecker A.S., Sinz F.H., Froudarakis E., Fahey P.G., Cadena S.A., Walker E.Y., Cobos E., Reimer J., Tolias A.S., Bethge M.
ArXiv:1809.10504 (2018)
Community-based benchmarking improves spike rate inference from two-photon calcium imaging data.
Berens, P., Freeman, J., Deneux, T., Chenkov, N., McColgan, T., Speiser, A., Macke, J.H., Turaga, S.C., Mineault, P., Rupprecht, P., Gerhard, S., Friedrich, R.W., Friedrich, J., Paninski, L., Pachitariu, M., Harris, K.D., Bolte, B., Machado, T.A., Ringach, D., Stone, J., Rogerson, L.E., Sofroniew, N.J., Reimer, J., Froudarakis, E., Euler, T., Rosón, M.R., Theis, L., Tolias, A.S., Bethge, M.
Computational Biology 14, e1006157, 2018
Developmental broadening of inhibitory sensory maps.
Quast, K.B., Ung, K., Froudarakis, E., Huang, L., Herman, I., Addison, A.P., Ortiz-Guzman, J., Cordiner, K., Saggau, P., Tolias, A.S.
Nat. Neurosci. 20, 189–199., 2017
Benchmarking Spike Rate Inference in Population Calcium Imaging.
Theis, L., Berens, P., Froudarakis, E., Reimer, J., Román Rosón, M., Baden, T., Euler, T., Tolias, A.S., and Bethge, M.
Neuron 90, 471–482., 2016
Response to Comment on “Principles of connectivity among morphologically defined cell types in adult neocortex.”
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Science 353, 1108–1108., 2016
Improved Estimation and Interpretation of Correlations in Neural Circuits. Yatsenko, D., Josić, K., Ecker, A.S., Froudarakis, E., Cotton, R.J., and Tolias, A.S.
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Pupil Fluctuations Track Fast Switching of Cortical States during Quiet Wakefulness.
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Neuron 84, 355–362., 2014
Population code in mouse V1 facilitates readout of natural scenes through increased sparseness.
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Three-dimensional mapping of microcircuit correlation structure.
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Protection from premature habituation requires functional mushroom bodies in Drosophila.
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Distinct neuronal circuits mediate experience-dependent, non-associative osmotactic responses in Drosophila.
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