Dimensionality reduction for large-scale neural recordings
Cunningham, John P, Yu, Byron M·2014·Nature Neuroscience
DOI 10.1038/nn.3776
Cited by (1,001)
Items 201–300 of 1,001
- Annual Research Review: Discovery science strategies in studies of the pathophysiology of child and adolescent psychiatric disorders: promises and limitationsYi-Hong Zhao, F. Castellanos · 2016 · Journal of Child Psychology and Psychiatry and Allied Disciplines
- Decoding of Neural Data Using Cohomological Feature ExtractionErik Rybakken, Nils Andreas Baas, Benjamin Adric Dunn · 2018 · Neural Computation
- Understanding PerspectivismMichela Massimi, Casey D. McCoy · 2019 · Routledge eBooks
- H-PARAFAC: Hierarchical Parallel Factor Analysis of Multidimensional Big DataDan Chen, Yangyang Hu, Lizhe Wang, Albert Y. Zomaya, Xiaoli Li A · 2016 · IEEE Transactions on Parallel and Distributed Systems
- Computational Neuroscience: Mathematical and Statistical PerspectivesRobert E. Kass, S. Amari, Kensuke Arai, Emery N. Brown, Casey O. Diekman, Markus Diesmann, Brent Doiron, Uri T. Eden, Adrienne L. Fairhall, Grant M. Fiddyment et al. · 2017 · Annual Review of Statistics and Its Application
- Neural basis for categorical boundaries in the primate pre-SMA during relative categorization of time intervalsGermán Mendoza, Juan Carlos Méndez, Oswaldo Pérez, Luis Prado, Hugo Merchant · 2018 · Nature Communications
- Cell types for our sense of location: where we are and where we are goingHardcastle, Kiah, Ganguli, Surya, Giocomo, Lisa M · 2017 · Nature Neuroscience
- Geometric transformation of cognitive maps for generalization across hippocampal-prefrontal circuitsTang, Wenbo, Shin, Justin D., Jadhav, Shantanu P. · 2023 · Cell Reports
- Local field potentials reflect cortical population dynamics in a region-specific and frequency-dependent mannerCecilia Gallego-Carracedo, Matthew G. Perich, Raeed H. Chowdhury, Lee E. Miller, Juan Álvaro Gallego · 2022 · eLife
- Internal models for interpreting neural population activity during sensorimotor controlMatthew D. Golub, Byron M. Yu, Steven M. Chase · 2015 · eLife
- Nonlinear manifold learning in functional magnetic resonance imaging uncovers a low‐dimensional space of brain dynamicsSiyuan Gao, Gal Mishne, Dustin Scheinost · 2021 · Human Brain Mapping
- Multi-Regional Module-Based Signal Transmission in Mouse Visual CortexXiaoxuan Jia, Joshua H. Siegle, Séverine Durand, Greggory R. Heller, Tamina K. Ramirez, Christof Koch, Shawn R. Olsen · 2021 · Neuron
- Super-wide-field two-photon imaging with a micro-optical device moving in post-objective spaceShin-Ichiro Terada, Kenta Kobayashi, Masamichi Ohkura, Junichi Nakai, M Matsuzaki · 2018 · Nature Communications
- Motor cortical dynamics are shaped by multiple distinct subspaces during naturalistic behaviorMatthew G. Perich, Sara Conti, Marion Badi, Andrew R. Bogaard, Beatrice Barra, Kanaka Rajan, Jocelyne Bloch, Grégoire Courtine, Silvestro Micera, Marco Capogrosso et al. · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- Mirror Neuron Populations Represent Sequences of Behavioral Epochs During Both Execution and ObservationKevin A. Mazurek, Adam G. Rouse, Marc H. Schieber · 2018 · Journal of Neuroscience
- Human midcingulate cortex encodes distributed representations of task progressClay B. Holroyd, José J. F. Ribas Fernandes, Danesh Shahnazian, Massimo Silvetti, Tom Verguts · 2018 · Proceedings of the National Academy of Sciences
- The centrality of population-level factors to network computation is demonstrated by a versatile approach for training spiking networksBrian DePasquale, David Sussillo, Larry F. Abbott, Mark M. Churchland · 2023 · Neuron
- Probabilistic Encoding Models for Multivariate Neural DataMarcus A. Triplett, Geoffrey J. Goodhill · 2019 · Frontiers in Neural Circuits
- Distinct ensembles in the noradrenergic locus coeruleus are associated with diverse cortical statesShahryar Noei, Ioannis S. Zouridis, Nikos K. Logothetis, Stefano Panzeri, Nelson K. B. Totah · 2022 · Proceedings of the National Academy of Sciences
- Multiscale low-dimensional motor cortical state dynamics predict naturalistic reach-and-grasp behaviorHamidreza Abbaspourazad, Mahdi Choudhury, Yan T. Wong, Bijan Pesaran, Maryam Modir Shanechi · 2021 · Nature Communications
- Priority coding in the visual systemNicole C. Rust, Marlene R. Cohen · 2022 · Nature reviews. Neuroscience
- Diffuse neural coupling mediates complex network dynamics through the formation of quasi-critical brain statesEli J. Müller, Brandon Munn, James M. Shine · 2020 · Nature Communications
- Oscillatory recurrent gated neural integrator circuits (ORGaNICs), a unifying theoretical framework for neural dynamicsDavid J. Heeger, Wayne E. Mackey · 2019 · Proceedings of the National Academy of Sciences
- Perinatal infection, inflammation, preterm birth, and brain injury: A review with proposals for future investigationsJonathan D. Reiss, Laura S. Peterson, Sophia N Nesamoney, Alan Lee Chang, Anca M. Pașca, Ivana Marić, Gary Michael Shaw, Brice L Gaudilliere, Ronald J. Wong, Karl G. Sylvester et al. · 2022 · Experimental Neurology
- Gradient-based learning drives robust representations in recurrent neural networks by balancing compression and expansionMatthew Farrell, Stefano Recanatesi, Timothy Moore, Guillaume Lajoie, Eric Shea‐Brown · 2022 · Nature Machine Intelligence
- Attention improves information flow between neuronal populations without changing the communication subspaceRamanujan Srinath, Douglas A. Ruff, Marlene R. Cohen · 2021 · Current Biology
- General variability leads to specific adaptation toward optimal movement policiesSabrina J. Abram, Katherine L. Poggensee, Natalia Sánchez, Surabhi N. Simha, James M. Finley, Steven H. Collins, J. Maxwell Donelan · 2022 · Current Biology
- Investigating the concept of representation in the neural and psychological sciencesLuis H. Favela, Édouard Machery · 2023 · Frontiers in Psychology
- Minute-scale oscillatory sequences in medial entorhinal cortexSoledad Gonzalo Cogno, Horst Andreas Obenhaus, Ane Lautrup, R. Irene Jacobsen, Claudia Clopath A, Sebastian O. Andersson, Flavio Donato, May‐Britt Moser, Edvard Ingjald Moser · 2023 · Nature
- The need for calcium imaging in nonhuman primates: New motor neuroscience and brain-machine interfacesDaniel J. O’Shea, Eric M. Trautmann, Chandramouli Chandrasekaran, Sergey D. Stavisky, Jonathan C. Kao, Maneesh Sahani, Stephen I. Ryu, Karl A. Deisseroth, K.V. Shenoy · 2016 · Experimental Neurology
- Dimensionality, information and learning in prefrontal cortexRamón Bartolo, Richard C. Saunders, Andrew R. Mitz, Bruno B. Averbeck · 2020 · PLoS Computational Biology
- Improving power in functional magnetic resonance imaging by moving beyond cluster-level inferenceStephanie Noble, Amanda F. Mejia, Andrew Zalesky, Dustin Scheinost · 2022 · Proceedings of the National Academy of Sciences
- Dissociative and prioritized modeling of behaviorally relevant neural dynamics using recurrent neural networksOmid G. Sani, Bijan Pesaran, Maryam Modir Shanechi · 2024 · Nature Neuroscience
- Dimensionality compression and expansion in Deep Neural NetworksStefano Recanatesi, Matthew Farrell, Madhu Advani, Moore, Timothy, Guillaume Lajoie, Eric Shea‐Brown · 2019 · arXiv (Cornell University)
- Moving parts: the natural alliance between dynamical and mechanistic modeling approachesDavid Michael Kaplan · 2015 · Biology & Philosophy
- Orthogonal neural encoding of targets and distractors supports multivariate cognitive controlHarrison Ritz, Amitai Shenhav · 2024 · Nature Human Behaviour
- Multiscale organization of neuronal activity unifies scale-dependent theories of brain functionBrandon Munn, Eli J. Müller, Itia A. Favre‐Bulle, Ethan K. Scott, Joseph T. Lizier, Michael J Breakspear, James M. Shine · 2024 · Cell
- A deep learning strategy to identify cell types across species from high-density extracellular recordingsMaxime Beau, David J. Herzfeld, Francisco Naveros, Marie E. Hemelt, Federico D’Agostino, Marlies Oostland, Álvaro Sánchez‐López, Young Yoon Chung, Michael Maibach, Stephen Kyranakis et al. · 2025 · Cell
- Independent Neuronal Representation of Facial and Vocal Identity in the Monkey Hippocampus and Inferotemporal CortexJulia Sliwa, Aurélie Planté, Jean‐René Duhamel, Sylvia Wirth · 2014 · Cerebral Cortex
- Perturbing low dimensional activity manifolds in spiking neuronal networksEmil Wärnberg, Arvind Kumar · 2019 · PLoS Computational Biology
- Nonlinear manifolds underlie neural population activity during behaviourCátia Fortunato, Jorge Bennasar-Vázquez, Junchol Park, Joanna C. Chang, Lee E. Miller, Joshua Tate Dudman, Matthew G. Perich, Juan Álvaro Gallego · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- The dynamical renaissance in neuroscienceLuis H. Favela · 2020 · Synthese
- Modeling statistical dependencies in multi-region spike train dataStephen Keeley, David M. Zoltowski, Mikio Aoi, Jonathan W. Pillow · 2020 · Current Opinion in Neurobiology
- Coding with transient trajectories in recurrent neural networksGiulio Bondanelli, Srdjan Ostojic · 2020 · PLoS Computational Biology
- Plasticity and Adaptation in Neuromorphic Biohybrid SystemsRichard George, Michela Chiappalone, Michèle Giugliano, Timothée Levi, Stefano Vassanelli, Johannes Partzsch, Christian Mayr · 2020 · iScience
- Latent circuit inference from heterogeneous neural responses during cognitive tasksChristopher Langdon, Tatiana A. Engel · 2025 · Nature Neuroscience
- Structure in Neural Activity during Observed and Executed Movements Is Shared at the Neural Population Level, Not in Single NeuronsXiyuan Jiang, Hemant Saggar, Stephen I. Ryu, K.V. Shenoy, Jonathan C. Kao · 2020 · Cell Reports
- Neural Latents Benchmark '21: Evaluating latent variable models of neural population activityFelix Pei, Joel Ye, David M. Zoltowski, Anqi Wu, Raeed H. Chowdhury, Hansem Sohn, Joseph E. O’Doherty, K.V. Shenoy, Matthew Tyler Kaufman, Mark M. Churchland et al. · 2021 · arXiv (Cornell University)
- Neuroscience out of control: control-theoretic perspectives on neural circuit dynamicsTa-Chu Kao, Guillaume Hennequin · 2019 · Current Opinion in Neurobiology
- Noise correlations in neural ensemble activity limit the accuracy of hippocampal spatial representationsOmer Hazon, Victor Hugo Minces, David P. Tomàs, Surya Ganguli, Mark J. Schnitzer, Pablo E. Jercog · 2022 · Nature Communications
- Dynamic network modeling and dimensionality reduction for human ECoG activityYuxiao Yang, Omid G. Sani, Edward F. Chang, Maryam Modir Shanechi · 2019 · Journal of Neural Engineering
- Multiband entropy-based feature-extraction method for automatic identification of epileptic focus based on high-frequency components in interictal iEEGMost. Sheuli Akter, Md. Rabiul Islam, Yasushi Iimura, Hidenori Sugano, Kosuke Fukumori, Duo Wang, Toshihisa Tanaka, Andrzej S Cichocki · 2020 · Scientific Reports
- Incremental Factorization of Big Time Series Data with Blind Factor ApproximationDan Chen, Yunbo Tang, Hao Zhang, Lizhe Wang, Xiaoli Li A · 2019 · IEEE Transactions on Knowledge and Data Engineering
- Task-induced neural covariability as a signature of approximate Bayesian learning and inferenceRichard D. Lange, Ralf M. Haefner · 2022 · PLoS Computational Biology
- Dopamine D2 Receptors Enhance Population Dynamics in Primate Prefrontal Working Memory CircuitsTorben Ott, Andreas Nieder · 2016 · Cerebral Cortex
- On the methods for reactivation and replay analysisDavid Tingley, Adrien Peyrache · 2020 · Philosophical Transactions of the Royal Society B Biological Sciences
- Stable representation of a naturalistic movie emerges from episodic activity with gain variabilityJì Xià, Tyler D. Marks, Michael J. Goard, Ralf Weßel · 2021 · Nature Communications
- Stimulus-Driven Population Activity Patterns in Macaque Primary Visual CortexBenjamin R. Cowley, Matthew A. Smith, Adam Kohn, Byron M. Yu · 2016 · PLoS Computational Biology
- An orderly single-trial organization of population dynamics in premotor cortex predicts behavioral variabilityZiqiang Wei, H. Inagaki, Nuo Li, Karel Svoboda, Shaul Druckmann · 2019 · Nature Communications
- Brain age prediction: Cortical and subcortical shape covariation in the developing human brainYihong Zhao, Arno Klein, F. Xavier Castellanos, Michael Peter Milham · 2019 · NeuroImage
- Adaptive Engagement of Cognitive Control in Context-Dependent Decision MakingMichael Waskom, Michael C. Frank, Anthony D. Wagner · 2016 · Cerebral Cortex
- A Dynamical Basis Set for Generating ReachesMark M. Churchland, John Patrick Cunningham · 2014 · Cold Spring Harbor Symposia on Quantitative Biology
- The lure of misleading causal statements in functional connectivity researchDavid Ma Mehler, Konrad Paul Kording · 2018 · arXiv (Cornell University)
- Thalamocortical contributions to cognitive task activityEvan Sorenson, James M. Shine, Michael W. Cole, Kai Hwang · 2022 · eLife
- Unsupervised deep frequency-channel attention factorization to non-linear feature extraction: A case study of identification and functional connectivity interpretation of Parkinson’s diseaseHengjin Ke, Fengqin Wang, Hongliang Bi, Hongying Ma, Guangshuai Wang, Bo Yin · 2023 · Expert Systems with Applications
- Effective learning is accompanied by high-dimensional and efficient representations of neural activityEvelyn Tang, Marcelo Gomes Mattar, Chad Giusti, David M. Lydon‐Staley, Sharon L. Thompson‐Schill, Danielle S. Bassett · 2019 · Nature Neuroscience
- Condition-Dependent Neural Dimensions Progressively Shift during Reach to GraspAdam G. Rouse, Marc H. Schieber · 2018 · Cell Reports
- Analysis of neuronal ensemble activity reveals the pitfalls and shortcomings of rotation dynamicsMikhail Lebedev, Alexei E. Ossadtchi, Nil Adell Mill, Núria Armengol Urpí, Maria R. Cervera, Miguel A. L. Nicolelis · 2019 · Scientific Reports
- Residual dynamics resolves recurrent contributions to neural computationAniruddh R. Galgali, Maneesh Sahani, Valerio Mante · 2023 · Nature Neuroscience
- Dimensionality Reduction Methods for Brain Imaging Data AnalysisYunbo Tang, Dan Chen, Xiaoli Li A · 2021 · ACM Computing Surveys
- Knowledge generalization and the costs of multitaskingKelly Garner, Paul Edmund Dux · 2022 · Nature reviews. Neuroscience
- A deep learning framework for inference of single-trial neural population dynamics from calcium imaging with subframe temporal resolutionZhu Feng, Harrison A. Grier, Raghav Tandon, Changjia Cai, Anjali Agarwal, Andrea Giovannucci, Matthew Tyler Kaufman, Chethan Pandarinath · 2022 · Nature Neuroscience
- Neurotechnologies to restore hand functionsElena Losanno, Matthew J. Mender, Cynthia A. Chestek, Solaiman Shokur, Silvestro Micera · 2023 · Nature Reviews Bioengineering
- Computational role of structure in neural activity and connectivitySrdjan Ostojic, Stefano Fusi · 2024 · Trends in Cognitive Sciences
- Data-driven models in human neuroscience and neuroengineeringBingni W. Brunton, Michael Beyeler · 2019 · Current Opinion in Neurobiology
- Multi-view manifold learning of human brain-state trajectoriesErica L. Busch, Jessie Huang, Andrew Benz, Tom Wallenstein, Guillaume Lajoie, Guy Wolf, Smita Krishnaswamy, Nicholas B. Turk‐Browne · 2023 · Nature Computational Science
- Three challenges for connecting model to mechanism in decision-makingAnne K. Churchland, Roozbeh Kiani · 2016 · Current Opinion in Behavioral Sciences
- Leveraging neural dynamics to extend functional lifetime of brain-machine interfacesJonathan C. Kao, Stephen I. Ryu, K.V. Shenoy · 2017 · Scientific Reports
- Temporal alignment and latent Gaussian process factor inference in population spike trainsLea Duncker, Maneesh Sahani · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
- Recurrent Switching Dynamical Systems Models for Multiple Interacting Neural PopulationsJoshua I. Glaser, Matthew R Whiteway, John Patrick Cunningham, Liam Paninski, Scott W. Linderman · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- Inhibitory top-down projections from zona incerta mediate neocortical memoryAnna Schroeder, María Belén Pardi, Joram Keijser, Tamas Dalmay, Ayelén I. Groisman, Erin Margaret Schuman, Henning Sprekeler, Johannes J. Letzkus · 2023 · Neuron
- Modeling Similarity and Psychological SpaceBrett D. Roads, Bradley C. Love · 2023 · Annual Review of Psychology
- The dynamics and geometry of choice in the premotor cortexMikhail Genkin, K.V. Shenoy, Chandramouli Chandrasekaran, Tatiana A. Engel · 2025 · Nature
- Preparing and selecting actions with neural populations: toward cortical circuit mechanismsMasayoshi Murakami, Zachary F. Mainen · 2015 · Current Opinion in Neurobiology
- Extracting Low-Dimensional Latent Structure from Time Series in the Presence of DelaysKarthik C. Lakshmanan, Patrick T. Sadtler, Elizabeth C. Tyler‐Kabara, Aaron P. Batista, Byron M. Yu · 2015 · Neural Computation
- Rules warp feature encoding in decision-making circuitsR. Becket Ebitz, Jiaxin Cindy Tu, Benjamin Y. Hayden · 2020 · PLoS Biology
- Stabilizing brain-computer interfaces through alignment of latent dynamicsKarpowicz, Brianna M., Ali, Yahia H., Wimalasena, Lahiru N., Sedler, Andrew R., Keshtkaran, Mohammad Reza, Bodkin, Kevin, Ma, Xuan, Miller, Lee E., Pandarinath, Chethan · 2022
- Bridging neuronal correlations and dimensionality reductionAkash Umakantha, Rudina Morina, Benjamin R. Cowley, Adam C. Snyder, Matthew A. Smith, Byron M. Yu · 2021 · Neuron
- Brain–computer interfaces for neuropsychiatric disordersLucine L. Oganesian, Maryam Modir Shanechi · 2024 · Nature Reviews Bioengineering
- Estimating state and parameters in state space models of spike trainsJakob H. Macke, Lars Buesing, Maneesh Sahani · 2015 · Cambridge University Press eBooks
- Movement Decomposition in the Primary Motor CortexNaama Kadmon Harpaz, David Ungarish, Nicholas G. Hatsopoulos, Tamar Flash · 2018 · Cerebral Cortex
- Quantification of bursting and synchrony in cultured hippocampal neuronsLawrence N. Eisenman, Christine M. Emnett, Mohan Jayaram, Charles F. Zorumski, Steven J. Mennerick · 2015 · Journal of Neurophysiology
- Recent Advances at the Interface of Neuroscience and Artificial Neural NetworksYarden Cohen, Tatiana A. Engel, Christopher Langdon, Grace W. Lindsay, Torben Ott, Megan A. K. Peters, James M. Shine, Vincent Breton‐Provencher, Srikanth Ramaswamy · 2022 · Journal of Neuroscience
- Moving beyond generalization to accurate interpretation of flexible modelsMikhail Genkin, Tatiana A. Engel · 2020 · Nature Machine Intelligence
- Strong and localized recurrence controls the dimensionality of neural activity across brain areasDavid Dahmen, Stefano Recanatesi, Xiaoxuan Jia, Gabriel Koch Ocker, Nilufar Lahiji, Simon Musall, Luke Campagnola, Stephanie C. Seeman, Tim Jarsky, Moritz Helias et al. · 2026 · Nature Neuroscience
- From Parametric Representation to Dynamical System: Shifting Views of the Motor Cortex in Motor ControlTianwei Wang, Yun Chen, He Cui · 2022 · Neuroscience Bulletin
- Compulsive alcohol drinking in rodents is associated with altered representations of behavioral control and seeking in dorsal medial prefrontal cortexNicholas M. Timme, Baofeng Ma, David N. Linsenbardt, Ethan Cornwell, Taylor Galbari, Christopher C. Lapish · 2022 · Nature Communications
- Distributed representations of action sequences in anterior cingulate cortex: A recurrent neural network approachDanesh Shahnazian, Clay B. Holroyd · 2017 · Psychonomic Bulletin & Review
- Beyond dimension reduction: stable electric fields emerge from and allow representational driftPinotsis, Dimitris A., Miller, Earl K. · 2022 · NeuroImage
- Movement-specific signaling is differentially distributed across motor cortex layer 5 projection neuron classesStephen P. Currie, Julian J. Ammer, Brian Premchand, Joshua Dacre, Yufei Wu, Constantinos Eleftheriou, Matt Colligan, Thomas R Clarke, Leah Mitchell, A. Aldo Faisal et al. · 2022 · Cell Reports