Literature DB >> 33831347

Improving scalability in systems neuroscience.

Zhe Sage Chen1, Bijan Pesaran2.   

Abstract

Emerging technologies to acquire data at increasingly greater scales promise to transform discovery in systems neuroscience. However, current exponential growth in the scale of data acquisition is a double-edged sword. Scaling up data acquisition can speed up the cycle of discovery but can also misinterpret the results or possibly slow down the cycle because of challenges presented by the curse of high-dimensional data. Active, adaptive, closed-loop experimental paradigms use hardware and algorithms optimized to enable time-critical computation to provide feedback that interprets the observations and tests hypotheses to actively update the stimulus or stimulation parameters. In this perspective, we review important concepts of active and adaptive experiments and discuss how selectively constraining the dimensionality and optimizing strategies at different stages of discovery loop can help mitigate the curse of high-dimensional data. Active and adaptive closed-loop experimental paradigms can speed up discovery despite an exponentially increasing data scale, offering a road map to timely and iterative hypothesis revision and discovery in an era of exponential growth in neuroscience.
Copyright © 2021 Elsevier Inc. All rights reserved.

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Year:  2021        PMID: 33831347      PMCID: PMC8178195          DOI: 10.1016/j.neuron.2021.03.025

Source DB:  PubMed          Journal:  Neuron        ISSN: 0896-6273            Impact factor:   18.688


  133 in total

1.  Real-Time Readout of Large-Scale Unsorted Neural Ensemble Place Codes.

Authors:  Sile Hu; Davide Ciliberti; Andres D Grosmark; Frédéric Michon; Daoyun Ji; Hector Penagos; György Buzsáki; Matthew A Wilson; Fabian Kloosterman; Zhe Chen
Journal:  Cell Rep       Date:  2018-12-04       Impact factor: 9.423

Review 2.  Open source tools for large-scale neuroscience.

Authors:  Jeremy Freeman
Journal:  Curr Opin Neurobiol       Date:  2015-05-16       Impact factor: 6.627

Review 3.  Hippocampal sharp wave-ripple: A cognitive biomarker for episodic memory and planning.

Authors:  György Buzsáki
Journal:  Hippocampus       Date:  2015-10       Impact factor: 3.899

4.  Design and analysis of closed-loop decoder adaptation algorithms for brain-machine interfaces.

Authors:  Siddharth Dangi; Amy L Orsborn; Helene G Moorman; Jose M Carmena
Journal:  Neural Comput       Date:  2013-04-22       Impact factor: 2.026

Review 5.  Neural data science: accelerating the experiment-analysis-theory cycle in large-scale neuroscience.

Authors:  L Paninski; J P Cunningham
Journal:  Curr Opin Neurobiol       Date:  2018-06       Impact factor: 6.627

6.  Large-scale neural circuit mapping data analysis accelerated with the graphical processing unit (GPU).

Authors:  Yulin Shi; Alexander V Veidenbaum; Alex Nicolau; Xiangmin Xu
Journal:  J Neurosci Methods       Date:  2014-09-30       Impact factor: 2.390

7.  Dynamics of motor cortical activity during naturalistic feeding behavior.

Authors:  Shizhao Liu; Jose Iriate-Diaz; Nicholas G Hatsopoulos; Callum F Ross; Kazutaka Takahashi; Zhe Chen
Journal:  J Neural Eng       Date:  2019-02-05       Impact factor: 5.379

8.  Learning to control the brain through adaptive closed-loop patterned stimulation.

Authors:  Sina Tafazoli; Camden J MacDowell; Zongda Che; Katherine C Letai; Cynthia R Steinhardt; Timothy J Buschman
Journal:  J Neural Eng       Date:  2020-10-13       Impact factor: 5.379

9.  Nanofabricated Neural Probes for Dense 3-D Recordings of Brain Activity.

Authors:  Gustavo Rios; Evgueniy V Lubenov; Derrick Chi; Michael L Roukes; Athanassios G Siapas
Journal:  Nano Lett       Date:  2016-10-21       Impact factor: 11.189

Review 10.  Large-Scale Fluorescence Calcium-Imaging Methods for Studies of Long-Term Memory in Behaving Mammals.

Authors:  Pablo Jercog; Thomas Rogerson; Mark J Schnitzer
Journal:  Cold Spring Harb Perspect Biol       Date:  2016-05-02       Impact factor: 10.005

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  1 in total

1.  Uncovering spatial representations from spatiotemporal patterns of rodent hippocampal field potentials.

Authors:  Liang Cao; Viktor Varga; Zhe S Chen
Journal:  Cell Rep Methods       Date:  2021-10-25
  1 in total

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