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10 results for “Neuropixels”
Neuropixels recordings from mouse visual cortex for Jia et al (2022)
<p>Neuropixels recordings from mouse visual cortex. The dataset was used in the paper: <strong>Multi-regional module-based signal transmission in mouse visual cortex,</strong> Jia et al. (2022) Neuron.</p> <p>For information about experimental procedures, see Siegle, Jia et al. (2021) Nature 592, 86-92 (https://www.nature.com/articles/s41586-020-03171-x).</p> <p>For information about file contents, see https://allensdk.readthedocs.io/en/latest/visual_coding_neuropixels.html</p> <p>The NWB 1.0 files can be opened with HDF5 and HDFview. </p> <table> <tbody> <tr> <td><strong>Mouse ID</strong></td> <td><strong>Genotype</strong></td> <td> </td> </tr> <tr> <td>306046</td> <td>['Sst-IRES-Cre/wt;Ai32/wt']</td> <td> </td> </tr> <tr> <td>388523</td> <td>['Pvalb-Cre',]</td> <td> </td> </tr> <tr> <td>389262</td> <td>['Vip-Cre']</td> <td> </td> </tr> <tr> <td>408153</td> <td>['Sst-IRES-Cre/wt;Ai32/wt']</td> <td> </td> </tr> <tr> <td>410344</td> <td>['Vip-Cre']</td> <td> </td> </tr> <tr> <td>415149</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>412809</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>412804</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>416856</td> <td>['Sst-IRES-Cre/wt;Ai32/wt']</td> <td> </td> </tr> <tr> <td>419114</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>419117</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>419118</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>419119</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>424445</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>415148</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>416356</td> <td>['Sst-IRES-Cre/wt;Ai32/wt']</td> <td> </td> </tr> <tr> <td>416861</td> <td>['Sst-IRES-Cre/wt;Ai32/wt']</td> <td> </td> </tr> <tr> <td>419112</td> <td>['wt/wt']</td> <td> </td> </tr> <tr> <td>419116</td> <td>['wt/wt']</td> <td> </td> </tr> </tbody> </table> <p> </p>
Large-scale neural recordings with single neuron resolution using Neuropixels probes in human cortex
<p><span>Recent advances in multi-electrode array technology have made it possible to monitor large neuronal ensembles at cellular resolution in animal models. In humans, however, c</span>urrent approaches restrict recordings to few neurons per penetrating electrode or combine the signals of thousands of neurons in local field potential (LFP) recordings. Here, we describe a new probe variant and set of techniques which enable simultaneous recording from over 200 well-isolated cortical single units in human participants during intraoperative neurosurgical procedures using silicon Neuropixels probes. We characterized a diversity of extracellular waveforms with eight separable single unit classes, with differing firing rates, locations along the length of the electrode array, waveform spatial spread, and modulation by LFP events such as inter-ictal discharges and burst suppression. While some challenges remain in creating a turn-key recording system, high-density silicon arrays provide a path for studying human-specific cognitive processes and their dysfunction at unprecedented spatiotemporal resolution. </p>
Large-scale neural recordings with single neuron resolution using Neuropixels probes in human cortex
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Data from: An approach for long-term, multi-probe Neuropixels recordings in unrestrained rats
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ZETA benchmarking neuropixels data
<p>Pre-processed matlab data files containing clustered spiking data of cells recorded across various visually-responsive regions with Neuropixels. The data can be accessed using the files provided at https://github.com/JorritMontijn/ZETA_analysis_repository.</p> <p>Neurophysiological studies depend on a reliable quantification of whether and when a neuron responds to stimulation. Current methods to determine responsiveness require arbitrary parameter choices, such as binning size. These choices can change the results, which invites bad statistical practice and reduces the replicability. Moreover, many methods only detect mean-rate modulated cells. New recording techniques that yield increasingly large numbers of cells would benefit from a test for cell-inclusion that requires no manual curation. Here, we present the parameter-free ZETA-test, which outperforms t-tests and ANOVAs by including more cells at a similar false-positive rate. We show that our procedure works across brain regions and recording techniques, including calcium imaging and Neuropixels data. Furthermore, in illustration of the method, we show in mouse visual cortex that 1) visuomotor-mismatch and spatial location are encoded by different neuronal subpopulations; and 2) optogenetic stimulation of VIP cells leads to early inhibition and subsequent disinhibition.</p>
Neuropixels recordings from GCaMP6f+ mice for Siegle, Ledochowitsch et al. (2021)
<p>NWB files for a novel Neuropixels electrophysiology dataset from transgenic mice expressing GCaMP6f, as well as additional wild type mice. This dataset was used in a comparison of electrophysiology and two-photon imaging data, which appears in Siegle, Ledochowitsch et al. (2021) eLife.</p> <p>For information about experimental procedures, see Siegle, Jia et al. (2021) Nature 592, 86-92 (https://www.nature.com/articles/s41586-020-03171-x).</p> <p>For information about file contents, see https://allensdk.readthedocs.io/en/latest/visual_coding_neuropixels.html</p> <p>Files were generated with a custom branch of the AllenSDK, available at https://github.com/jsiegle/allensdk/tree/ophys-ephys. We recommend using the same branch to interact with these files.</p>
Neuropixels single-mouse LFP data
<p>Single-mouse Neuropixels recordings (spikes and LFPs) in NWB format. Dataset used in the paper "Cross-population coupling of neural activity based on Gaussian process current source densities" by Klein, N., Siegle, J.H., Teichert, T., and Kass, R.E. (preprint: <a href="https://arxiv.org/abs/2104.10070">https://arxiv.org/abs/2104.10070</a>). </p> <p>The data is part of the Allen Brain Observatory Neuropixels dataset (©2019 Allen Institute for Brain Science, available from <a href="https://portal.brain-map.org/explore/circuits/visual-coding-neuropixels">https://portal.brain-map.org/explore/circuits/visual-coding-neuropixels</a>). Six Neuropixels probes were simultaneously inserted through visual cortex, hippocampus, thalamus, and midbrain. On each probe, LFP data was recorded from up to 374 electrode locations in a checkerboard layout spanning two spatial dimensions: four columns spaced 16 microns apart, with 20 micron spacing between rows. LFP data was acquired at 2500 Hz after applying a 1000 Hz low-pass filter. Boundaries between regions were manually identified based on decreases in unit density as well as physiological signatures (such as elevated theta-band activity in the hippocampus). LFP electrodes without region labels were not included in the analysis. Spike trains and downsampled LFP data for this mouse (subject ID: 730760270; session ID: 755434585) can be accessed via the AllenSDK or via the DANDI Archive <a href="https://dandiarchive.org/dandiset/000021/draft">https://dandiarchive.org/dandiset/000021/draft</a>. The original LFP data used for this analysis is available as part of the Allen Brain Observatory AWS Public Data Set <a href="https://registry.opendata.aws/allen-brain-observatory/">https://registry.opendata.aws/allen-brain-observatory/</a>.<br> </p>
ZETA benchmarking neuropixels data
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High-density single-unit human cortical recordings using the Neuropixels probe
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pogona vitticeps Neuropixels UHD passive probe recordings
<p>dataset of electrophysiological recordings in bearded dragons using passive UHD neuropixels probes</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.