Three-dimensional spike localization and improved motion correction for Neuropixels recordings

Julien Boussard, Erdem Varol, Hyun Dong Lee, Nishchal Dethe, Liam Paninski

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Abstract

    Neuropixels (NP) probes are dense linear multi-electrode arrays that have rapidly become essential tools for studying the electrophysiology of large neural populations. Unfortunately, a number of challenges remain in analyzing the large datasets output by these probes. Here we introduce several new methods for extracting useful spiking information from NP probes. First, we use a simple point neuron model, together with a neural-network denoiser, to efficiently map single spikes detected on the probe into three-dimensional localizations. Previous methods localized individual spikes in two dimensions only; we show that the new localization approach is significantly more robust and provides an improved feature set for clustering spikes according to neural identity (“spike sorting"). Next, we denoise the resulting three-dimensional point-cloud representation of the data, and show that the resulting 3D images can be accurately registered over time, leading to improved tracking of time-varying neural activity over the probe, and in turn, crisper estimates of neural clusters over time. Open source code is available at https://github.com/int-brain-lab/spikes_localization_registration.git.

    Original languageEnglish (US)
    Title of host publicationAdvances in Neural Information Processing Systems 34 - 35th Conference on Neural Information Processing Systems, NeurIPS 2021
    EditorsMarc'Aurelio Ranzato, Alina Beygelzimer, Yann Dauphin, Percy S. Liang, Jenn Wortman Vaughan
    PublisherNeural information processing systems foundation
    Pages22095-22105
    Number of pages11
    ISBN (Electronic)9781713845393
    StatePublished - 2021
    Event35th Conference on Neural Information Processing Systems, NeurIPS 2021 - Virtual, Online
    Duration: Dec 6 2021Dec 14 2021

    Publication series

    NameAdvances in Neural Information Processing Systems
    Volume27
    ISSN (Print)1049-5258

    Conference

    Conference35th Conference on Neural Information Processing Systems, NeurIPS 2021
    CityVirtual, Online
    Period12/6/2112/14/21

    ASJC Scopus subject areas

    • Computer Networks and Communications
    • Information Systems
    • Signal Processing

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