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16 Publications

Showing 11-16 of 16 results
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    10/13/19 | Sequential and efficient neural-population coding of complex task information
    Koay SA, Thiberge SY, Brody CD, Tank DW
    bioRxiv. 10/2019:. doi: 10.1101/801654

    Recent work has highlighted that many types of variables are represented in each neocortical area. How can these many neural representations be organized together without interference, and coherently maintained/updated through time? We recorded from large neural populations in posterior cortices as mice performed a complex, dynamic task involving multiple interrelated variables. The neural encoding implied that correlated task variables were represented by uncorrelated modes in an information-coding subspace. We show via theory that this can enable optimal decoding directions to be insensitive to neural noise levels. Across posterior cortex, principles of efficient coding thus applied to task-specific information, with neural-population modes as the encoding unit. Remarkably, this encoding function was multiplexed with rapidly changing, sequential neural dynamics, yet reliably followed slow changes in task-variable correlations through time. We can explain this as due to a mathematical property of high-dimensional spaces that the brain might exploit as a temporal scaffold.

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    01/10/12 | Simplified models for LHC new physics searches
    Alves D, Arkani-Hamed N, Arora S, Bai Y, Baumgart M, Berger J, Buckley M, Butler B, Chang S, Cheng H, Cheung C, Chivukula RS, Cho WS, Cotta R, D’Alfonso M, Hedri SE, Essig R, Evans JA, Fitzpatrick L, Fox P, Franceschini R, Freitas A, Gainer JS, Gershtein Y, Gray R, Gregoire T, Gripaios B, Gunion J, Han T, Haas A, Hansson P, Hewett J, Hits D, Hubisz J, Izaguirre E, Kaplan J, Katz E, Kilic C, Kim H, Kitano R, Koay SA, Ko P, Krohn D, Kuflik E, Lewis I, Lisanti M, Liu T, Liu Z, Lu R, Luty M, Meade P, Morrissey D, Mrenna S, Nojiri M, Okui T, Padhi S, Papucci M, Park M, Park M, Perelstein M, Peskin M, Phalen D, Rehermann K, Rentala V, Roy T, Ruderman JT, Sanz V, Schmaltz M, Schnetzer S, Schuster P, Schwaller P, Schwartz MD, Schwartzman A, Shao J, Shelton J, Shih D, Shu J, Silverstein D, Simmons E, Somalwar S, Spannowsky M, Spethmann C, Strassler M, Su S, Tait T, Thomas B, Thomas S, Toro N, Volansky T, Wacker J, Waltenberger W, Yavin I, Yu F, Zhao Y, Zurek K, LHC New Physics Working Group
    Journal of Physics G: Nuclear and Particle Physics. Jan-10-2012;39(10):105005. doi: 10.1088/0954-3899/39/10/105005

    This document proposes a collection of simplified models relevant to the design of new-physics searches at the Large Hadron Collider (LHC) and the characterization of their results. Both ATLAS and CMS have already presented some results in terms of simplified models, and we encourage them to continue and expand this effort, which supplements both signature-based results and benchmark model interpretations. A simplified model is defined by an effective Lagrangian describing the interactions of a small number of new particles. Simplified models can equally well be described by a small number of masses and cross-sections. These parameters are directly related to collider physics observables, making simplified models a particularly effective framework for evaluating searches and a useful starting point for characterizing positive signals of new physics. This document serves as an official summary of the results from the 'Topologies for Early LHC Searches' workshop, held at SLAC in September of 2010, the purpose of which was to develop a set of representative models that can be used to cover all relevant phase space in experimental searches. Particular emphasis is placed on searches relevant for the first ~50–500 pb−1 of data and those motivated by supersymmetric models. This note largely summarizes material posted at http://lhcnewphysics.org/, which includes simplified model definitions, Monte Carlo material, and supporting contacts within the theory community. We also comment on future developments that may be useful as more data is gathered and analyzed by the experiments.

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    10/29/18 | Specialized and spatially organized coding of sensory, motor, and cognitive variables in midbrain dopamine neurons
    Engelhard B, Finkelstein J, Cox J, Fleming W, Jang HJ, Ornelas S, Koay SA, Thiberge S, Daw N, Tank DW, Witten IB
    bioRxiv. 10/2018:. doi: 10.1101/456194

    There is increased appreciation that dopamine (DA) neurons in the midbrain respond not only to reward 1,2 and reward-predicting cues 1,3,4, but also to other variables such as distance to reward 5, movements 6–11 and behavioral choices 12–15. Based on these findings, a major open question is how the responses to these diverse variables are organized across the population of DA neurons. In other words, do individual DA neurons multiplex multiple variables, or are subsets of neurons specialized in encoding specific behavioral variables? The reason that this fundamental question has been difficult to resolve is that recordings from large populations of individual DA neurons have not been performed in a behavioral task with sufficient complexity to examine these diverse variables simultaneously. To address this gap, we used 2-photon calcium imaging through an implanted lens to record activity of >300 midbrain DA neurons in the VTA during a complex decision-making task. As mice navigated in a virtual reality (VR) environment, DA neurons encoded an array of sensory, motor, and cognitive variables. These responses were functionally clustered, such that subpopulations of neurons transmitted information about a subset of behavioral variables, in addition to encoding reward. These functional clusters were spatially organized, such that neighboring neurons were more likely to be part of the same cluster. Taken together with the topography between DA neurons and their projections, this specialization and anatomical organization may aid downstream circuits in correctly interpreting the wide range of signals transmitted by DA neurons.

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    05/29/19 | Specialized coding of sensory, motor and cognitive variables in VTA dopamine neurons
    Engelhard B, Finkelstein J, Cox J, Fleming W, Jang HJ, Ornelas S, Koay SA, Thiberge SY, Daw ND, Tank DW, Witten IB
    Nature. 05/2019;570(7762):509 - 513. doi: 10.1038/s41586-019-1261-9

    There is increased appreciation that dopamine neurons in the midbrain respond not only to reward1 and reward-predicting cues1,2, but also to other variables such as the distance to reward3, movements4,5,6,7,8,9 and behavioural choices10,11. An important question is how the responses to these diverse variables are organized across the population of dopamine neurons. Whether individual dopamine neurons multiplex several variables, or whether there are subsets of neurons that are specialized in encoding specific behavioural variables remains unclear. This fundamental question has been difficult to resolve because recordings from large populations of individual dopamine neurons have not been performed in a behavioural task with sufficient complexity to examine these diverse variables simultaneously. Here, to address this gap, we used two-photon calcium imaging through an implanted lens to record the activity of more than 300 dopamine neurons from the ventral tegmental area of the mouse midbrain during a complex decision-making task. As mice navigated in a virtual-reality environment, dopamine neurons encoded an array of sensory, motor and cognitive variables. These responses were functionally clustered, such that subpopulations of neurons transmitted information about a subset of behavioural variables, in addition to encoding reward. These functional clusters were spatially organized, with neighbouring neurons more likely to be part of the same cluster. Together with the topography between dopamine neurons and their projections, this specialization and anatomical organization may aid downstream circuits in correctly interpreting the wide range of signals transmitted by dopamine neurons.

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    03/05/17 | Stochastic filtering of two-photon imaging using reweighted ℓ<inf>1</inf>
    Charles AS, Song A, Koay SA, Tank DW, Pillow JW
    2017 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP). 03/2017:. doi: 10.1109/ICASSP.2017.7952314

    Two-photon (TP) calcium imaging is an important imaging modality in neuroscience, allowing for large-scale recording of neural activity in awake, behaving animals at behavior-relevant timescales. Interpretation of TP data requires the accurate extraction of temporal neural activity traces, which can be accomplished via manual or automated methods. In this work we seek to improve the accuracy of both manual and automated TP microscopy demixing methods by introducing a denoising algorithm based on a statistical model of TP data which includes spatial contiguity, sparse activity and Poisson observations. Our method leverages recent developments in stochastic filtering of structured signals based on Laplacian-scale mixture models (LSMs) to model the neural activity in TP data as a set of spatially correlated sparse variables. We apply our method on TP images taken from the visual cortex of an awake, behaving mouse, and demonstrate improved neural activity demixing over current pre-processing techniques.
     

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    03/20/17 | Volumetric two-photon imaging of neurons using stereoscopy (vTwINS)
    Song A, Charles AS, Koay SA, Gauthier JL, Thiberge SY, Pillow JW, Tank DW
    Nature Methods. 03/2017;14(4):420 - 426. doi: 10.1038/nmeth.4226

    Two-photon laser scanning microscopy of calcium dynamics using fluorescent indicators is a widely used imaging method for large-scale recording of neural activity in vivo. Here, we introduce volumetric two-photon imaging of neurons using stereoscopy (vTwINS), a volumetric calcium imaging method that uses an elongated, V-shaped point spread function to image a 3D brain volume. Single neurons project to spatially displaced 'image pairs' in the resulting 2D image, and the separation distance between projections is proportional to depth in the volume. To demix the fluorescence time series of individual neurons, we introduce a modified orthogonal matching pursuit algorithm that also infers source locations within the 3D volume. We illustrated vTwINS by imaging neural population activity in the mouse primary visual cortex and hippocampus. Our results demonstrated that vTwINS provides an effective method for volumetric two-photon calcium imaging that increases the number of neurons recorded while maintaining a high frame rate.

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