Publications

2022

Neuroscience Cloud Analysis As a Service: An open-source platform for scalable, reproducible data analysis

Taiga Abe, Ian Kinsella, Shreya Saxena, E Kelly Buchanan, Joao Couto, John Briggs, Sian Lee Kitt, Ryan Glassman, John Zhou, Liam Paninski, John P Cunningham

Preconditioning for Scalable Gaussian Process Hyperparameter Optimization

Jonathan Wenger, Geoff Pleiss, Philipp Hennig, John P. Cunningham, Jacob R. Gardner

Fast Benchmarking of Accuracy vs. Training Time with Cyclic Learning Rates

Jacob Portes, Davis Blalock, Cory Stephenson, Jonathan Frankle

Posterior and Computational Uncertainty in Gaussian Processes

Jonathan Wenger, Geoff Pleiss, Marvin Pförtner, Philipp Hennig, John P. Cunningham

Unifying model for three forms of contextual modulation including feedback input from higher visual areas

Serena Di Santo, Mario Dipoppa, Andreas Keller, Morgane Roth, Massimo Scanziani, Kenneth D. Miller

The stabilized supralinear network accounts for the contrast dependence of visual cortical gamma oscillations

Caleb J Holta, Kenneth D Miller, Yashar Ahmadian

Data Augmentation for Compositional Data: Advancing Predictive Models of the Microbiome

Elliott Gordon-Rodriguez, Thomas P. Quinn, John P. Cunningham

Neural learning rules for generating flexible predictions and computing the successor representation

Ching Fang,Dmitriy Aronov, L.F. Abbott, Emily Mackevicius

Sparse RNNs can support high-capacity classification

Denis Turcu, L. F. Abbott

Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity

Nicholas L. Turner,Thomas Macrina,J. Alexander Bae,Runzhe Yang,Alyssa M. Wilson,Casey Schneider-Mizell,Kisuk L RanLu, Jingpeng Wu,Agnes L. Bodor, Adam A. Bleckert, Derrick Brittain, Emmanouil Froudarakis, Sven Dorkenwald, Forrest Collman,Nico Kemnitz

Dodam Ih, William M.Silversmith, H. SebastianSeung

Reproducibility of in-vivo electrophysiological measurements in mice

International Brain Laboratory, Kush Banga, Julius Benson, Niccolò Bonacchi, Sebastian A Bruijns, Rob Campbell, Gaëlle A Chapuis, Anne K Churchland,M Felicia Davatolhagh, Hyun Dong Lee, Mayo Faulkner, Fei Hu

Julia Hunterberg, Anup Khanal, Christopher Krasniak,Guido T Meijer, Nathaniel J Miska, Zeinab Mohammadi, Jean-Paul Noel, Liam Paninski, Alejandro Pan-Vazquez,Noam Roth, Michael Schartner

Karolina Socha, Nicholas A Steinmetz, Karel Svoboda, Marsa Taheri, Anne E Urai, Miles Wells, Steven J West, Matthew R Whiteway, Olivier Winter, Ilana B Witten

Divisive Feature Normalization Improves Image Recognition Performance in AlexNet

Michelle Miller, SueYeon Chung, Kenneth D. Miller

Spike sorting pipeline for the International Brain Laboratory

International Brain Laboratory, Kush Banga,Julien Boussard, Gaëlle A Chapuis, Mayo Faulkner, Kenneth D Harris, Julia M. Huntenburg, Cole Hurwitz, Hyun Dong Lee, Liam Paninski, Cyrille Rossant, Noam Roth, Nicholas A. Steinmetz

Charlie Windolf, Olivier Winter

On the Normalizing Constant of the Continuous Categorical Distribution

Elliott Gordon-Rodriguez, Gabriel Loaiza-Ganem, Andres Potapczynski, John P. Cunningham

SemiMultiPose: A Semi-supervised Multi-animal Pose Estimation Framework

Ari Blau, Christoph Gebhardt, Andres Bendesky, Liam Paninski, Anqi Wu

Blind demixing methods for recovering dense neuronal morphology from barcode imaging data

Shuonan Chen, Jackson Loper, Pengcheng Zhou, Liam Paninski

Hierarchical architecture of dopaminergic circuits enables second-order conditioning in Drosophila

Daichi Yamada,Daniel Bushey,Li Feng,Karen Hibbard,Megan Sammons,Jan Funke,Ashok Litwin-Kumar,Toshihide Hige,Yoshinori Aso

Connectomic Analysis of the Drosophila Lateral Neuron Clock Cells Reveals the Synaptic Basis of Functional Pacemaker Classes

Shafer, O.T., Gutierrez, G.J., Li, K., Mildenhall, A., Spira, D., Marty, J., Lazar, A.A., Fernandez, M.P.

Flexible neural control of motor units

Marshall, N.J., Glaser, J.I., Trautmann, E.M., Amematsro, E.A., Perkins, S.M., Shadlen, M.N., Abbott, L.F., Cunningham, J.P., Churchland, M.M.

Biological underpinnings for lifelong learning machines

Dhireesha Kudithipudi, Mario Aguilar-Simon, Jonathan Babb, Maxim Bazhenov, Douglas Blackiston, Josh Bongard, Andrew P. Brna, Suraj Chakravarthi Raja, Nick Cheney, Jeff Clune, Anurag Daram, Stefano Fusi, Peter Helfer, Leslie Kay, Nicholas Ketz, Zsolt Kira,

Soheil Kolouri, Jeffrey L. Krichmar, Sam Kriegman, Michael Levin, Sandeep Madireddy, Santosh Manicka, Ali Marjaninejad, Bruce McNaughton, Risto Miikkulainen, Zaneta Navratilova, Tej Pandit, Alice Parker, Praveen K. Pilly, Sebastian Risi, Terrence J. Sejn

The lateral intraparietal area preferentially supports stimulus selection in directed tasks compared to undirected free behavior

W. Jeffrey Johnston, Stephanie M. Tetrick, David J. Freedman

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2022

Neuroscience Cloud Analysis As a Service: An open-source platform for scalable, reproducible data analysis

Preconditioning for Scalable Gaussian Process Hyperparameter Optimization

Fast Benchmarking of Accuracy vs. Training Time with Cyclic Learning Rates

Posterior and Computational Uncertainty in Gaussian Processes

Unifying model for three forms of contextual modulation including feedback input from higher visual areas

The stabilized supralinear network accounts for the contrast dependence of visual cortical gamma oscillations

Data Augmentation for Compositional Data: Advancing Predictive Models of the Microbiome

Neural learning rules for generating flexible predictions and computing the successor representation

Sparse RNNs can support high-capacity classification

Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity

Reproducibility of in-vivo electrophysiological measurements in mice

Divisive Feature Normalization Improves Image Recognition Performance in AlexNet

Spike sorting pipeline for the International Brain Laboratory

On the Normalizing Constant of the Continuous Categorical Distribution

SemiMultiPose: A Semi-supervised Multi-animal Pose Estimation Framework

Blind demixing methods for recovering dense neuronal morphology from barcode imaging data

Hierarchical architecture of dopaminergic circuits enables second-order conditioning in Drosophila

Connectomic Analysis of the Drosophila Lateral Neuron Clock Cells Reveals the Synaptic Basis of Functional Pacemaker Classes

Flexible neural control of motor units

Biological underpinnings for lifelong learning machines

Corticotropin-releasing hormone signaling from prefrontal cortex to lateral septum supports social novelty preference

Curriculum learning as a tool to uncover learning principles in the brain

Optimal routing to cerebellum-like structures

Hebbian learning of orientation-selective receptive fields with monotonic fall-off of input correlations

The lateral intraparietal area preferentially supports stimulus selection in directed tasks compared to undirected free behavior

Emergence of Irregular Activity in Networks of Strongly Coupled Conductance-Based Neurons

Influence of sensory modality and control dynamics on human path integration

Deep Ensembles Work, But Are They Necessary?

Mapping Interstellar Dust with Gaussian Processes

Sparse balance: excitatory-inhibitory networks with small bias currents and broadly distributed synaptic weights

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