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A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task
A challenge for data sharing in systems neuroscience is the multitude of different data formats used. Neurodata Without Borders: Neurophysiology 2.0 (NWB:N) has emerged as a standardized data format for the storage of cellular-level data together with meta-data, stimulus information, and behavior. A...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7055261/ https://www.ncbi.nlm.nih.gov/pubmed/32132545 http://dx.doi.org/10.1038/s41597-020-0415-9 |
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author | Chandravadia, N. Liang, D. Schjetnan, A. G. P. Carlson, A. Faraut, M. Chung, J. M. Reed, C. M. Dichter, B. Maoz, U. Kalia, S. K. Valiante, T. A. Mamelak, A. N. Rutishauser, U. |
author_facet | Chandravadia, N. Liang, D. Schjetnan, A. G. P. Carlson, A. Faraut, M. Chung, J. M. Reed, C. M. Dichter, B. Maoz, U. Kalia, S. K. Valiante, T. A. Mamelak, A. N. Rutishauser, U. |
author_sort | Chandravadia, N. |
collection | PubMed |
description | A challenge for data sharing in systems neuroscience is the multitude of different data formats used. Neurodata Without Borders: Neurophysiology 2.0 (NWB:N) has emerged as a standardized data format for the storage of cellular-level data together with meta-data, stimulus information, and behavior. A key next step to facilitate NWB:N adoption is to provide easy to use processing pipelines to import/export data from/to NWB:N. Here, we present a NWB-formatted dataset of 1863 single neurons recorded from the medial temporal lobes of 59 human subjects undergoing intracranial monitoring while they performed a recognition memory task. We provide code to analyze and export/import stimuli, behavior, and electrophysiological recordings to/from NWB in both MATLAB and Python. The data files are NWB:N compliant, which affords interoperability between programming languages and operating systems. This combined data and code release is a case study for how to utilize NWB:N for human single-neuron recordings and enables easy re-use of this hard-to-obtain data for both teaching and research on the mechanisms of human memory. |
format | Online Article Text |
id | pubmed-7055261 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-70552612020-03-19 A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task Chandravadia, N. Liang, D. Schjetnan, A. G. P. Carlson, A. Faraut, M. Chung, J. M. Reed, C. M. Dichter, B. Maoz, U. Kalia, S. K. Valiante, T. A. Mamelak, A. N. Rutishauser, U. Sci Data Data Descriptor A challenge for data sharing in systems neuroscience is the multitude of different data formats used. Neurodata Without Borders: Neurophysiology 2.0 (NWB:N) has emerged as a standardized data format for the storage of cellular-level data together with meta-data, stimulus information, and behavior. A key next step to facilitate NWB:N adoption is to provide easy to use processing pipelines to import/export data from/to NWB:N. Here, we present a NWB-formatted dataset of 1863 single neurons recorded from the medial temporal lobes of 59 human subjects undergoing intracranial monitoring while they performed a recognition memory task. We provide code to analyze and export/import stimuli, behavior, and electrophysiological recordings to/from NWB in both MATLAB and Python. The data files are NWB:N compliant, which affords interoperability between programming languages and operating systems. This combined data and code release is a case study for how to utilize NWB:N for human single-neuron recordings and enables easy re-use of this hard-to-obtain data for both teaching and research on the mechanisms of human memory. Nature Publishing Group UK 2020-03-04 /pmc/articles/PMC7055261/ /pubmed/32132545 http://dx.doi.org/10.1038/s41597-020-0415-9 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the metadata files associated with this article. |
spellingShingle | Data Descriptor Chandravadia, N. Liang, D. Schjetnan, A. G. P. Carlson, A. Faraut, M. Chung, J. M. Reed, C. M. Dichter, B. Maoz, U. Kalia, S. K. Valiante, T. A. Mamelak, A. N. Rutishauser, U. A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title | A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title_full | A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title_fullStr | A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title_full_unstemmed | A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title_short | A NWB-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
title_sort | nwb-based dataset and processing pipeline of human single-neuron activity during a declarative memory task |
topic | Data Descriptor |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7055261/ https://www.ncbi.nlm.nih.gov/pubmed/32132545 http://dx.doi.org/10.1038/s41597-020-0415-9 |
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