SciBet as a portable and fast single cell type identifier

Fast, robust and technology-independent computational methods are needed for supervised cell type annotation of single-cell RNA sequencing data. We present SciBet, a supervised cell type identifier that accurately predicts cell identity for newly sequenced cells with order-of-magnitude speed advanta...

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Detalles Bibliográficos
Autores principales: Li, Chenwei, Liu, Baolin, Kang, Boxi, Liu, Zedao, Liu, Yedan, Chen, Changya, Ren, Xianwen, Zhang, Zemin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2020
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7156687/
https://www.ncbi.nlm.nih.gov/pubmed/32286268
http://dx.doi.org/10.1038/s41467-020-15523-2
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author Li, Chenwei
Liu, Baolin
Kang, Boxi
Liu, Zedao
Liu, Yedan
Chen, Changya
Ren, Xianwen
Zhang, Zemin
author_facet Li, Chenwei
Liu, Baolin
Kang, Boxi
Liu, Zedao
Liu, Yedan
Chen, Changya
Ren, Xianwen
Zhang, Zemin
author_sort Li, Chenwei
collection PubMed
description Fast, robust and technology-independent computational methods are needed for supervised cell type annotation of single-cell RNA sequencing data. We present SciBet, a supervised cell type identifier that accurately predicts cell identity for newly sequenced cells with order-of-magnitude speed advantage. We enable web client deployment of SciBet for rapid local computation without uploading local data to the server. Facing the exponential growth in the size of single cell RNA datasets, this user-friendly and cross-platform tool can be widely useful for single cell type identification.
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spelling pubmed-71566872020-04-22 SciBet as a portable and fast single cell type identifier Li, Chenwei Liu, Baolin Kang, Boxi Liu, Zedao Liu, Yedan Chen, Changya Ren, Xianwen Zhang, Zemin Nat Commun Article Fast, robust and technology-independent computational methods are needed for supervised cell type annotation of single-cell RNA sequencing data. We present SciBet, a supervised cell type identifier that accurately predicts cell identity for newly sequenced cells with order-of-magnitude speed advantage. We enable web client deployment of SciBet for rapid local computation without uploading local data to the server. Facing the exponential growth in the size of single cell RNA datasets, this user-friendly and cross-platform tool can be widely useful for single cell type identification. Nature Publishing Group UK 2020-04-14 /pmc/articles/PMC7156687/ /pubmed/32286268 http://dx.doi.org/10.1038/s41467-020-15523-2 Text en © The Author(s) 2020, corrected publication 2021 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Li, Chenwei
Liu, Baolin
Kang, Boxi
Liu, Zedao
Liu, Yedan
Chen, Changya
Ren, Xianwen
Zhang, Zemin
SciBet as a portable and fast single cell type identifier
title SciBet as a portable and fast single cell type identifier
title_full SciBet as a portable and fast single cell type identifier
title_fullStr SciBet as a portable and fast single cell type identifier
title_full_unstemmed SciBet as a portable and fast single cell type identifier
title_short SciBet as a portable and fast single cell type identifier
title_sort scibet as a portable and fast single cell type identifier
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7156687/
https://www.ncbi.nlm.nih.gov/pubmed/32286268
http://dx.doi.org/10.1038/s41467-020-15523-2
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