Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing

Sample index hopping results in various artefacts in multiplexed scRNA-seq experiments. Here, the authors introduce a statistical model to estimate sample index hopping rate in droplet-based scRNA-seq data and show that artifacts can be corrected by purging phantom molecules from the data.

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Auteurs principaux:	Rick Farouni, Haig Djambazian, Lorenzo E. Ferri, Jiannis Ragoussis, Hamed S. Najafabadi
Format:	article
Langue:	EN
Publié:	Nature Portfolio 2020
Sujets:	Science Q
Accès en ligne:	https://doaj.org/article/037f529200114ff2b18593e0a1a1f12c
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id	oai:doaj.org-article:037f529200114ff2b18593e0a1a1f12c
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spelling	oai:doaj.org-article:037f529200114ff2b18593e0a1a1f12c2021-12-02T15:02:47ZModel-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing10.1038/s41467-020-16522-z2041-1723https://doaj.org/article/037f529200114ff2b18593e0a1a1f12c2020-06-01T00:00:00Zhttps://doi.org/10.1038/s41467-020-16522-zhttps://doaj.org/toc/2041-1723Sample index hopping results in various artefacts in multiplexed scRNA-seq experiments. Here, the authors introduce a statistical model to estimate sample index hopping rate in droplet-based scRNA-seq data and show that artifacts can be corrected by purging phantom molecules from the data.Rick FarouniHaig DjambazianLorenzo E. FerriJiannis RagoussisHamed S. NajafabadiNature PortfolioarticleScienceQENNature Communications, Vol 11, Iss 1, Pp 1-8 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Science Q
spellingShingle	Science Q Rick Farouni Haig Djambazian Lorenzo E. Ferri Jiannis Ragoussis Hamed S. Najafabadi Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
description	Sample index hopping results in various artefacts in multiplexed scRNA-seq experiments. Here, the authors introduce a statistical model to estimate sample index hopping rate in droplet-based scRNA-seq data and show that artifacts can be corrected by purging phantom molecules from the data.
format	article
author	Rick Farouni Haig Djambazian Lorenzo E. Ferri Jiannis Ragoussis Hamed S. Najafabadi
author_facet	Rick Farouni Haig Djambazian Lorenzo E. Ferri Jiannis Ragoussis Hamed S. Najafabadi
author_sort	Rick Farouni
title	Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
title_short	Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
title_full	Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
title_fullStr	Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
title_full_unstemmed	Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing
title_sort	model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell rna-sequencing
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/037f529200114ff2b18593e0a1a1f12c
work_keys_str_mv	AT rickfarouni modelbasedanalysisofsampleindexhoppingrevealsitswidespreadartifactsinmultiplexedsinglecellrnasequencing AT haigdjambazian modelbasedanalysisofsampleindexhoppingrevealsitswidespreadartifactsinmultiplexedsinglecellrnasequencing AT lorenzoeferri modelbasedanalysisofsampleindexhoppingrevealsitswidespreadartifactsinmultiplexedsinglecellrnasequencing AT jiannisragoussis modelbasedanalysisofsampleindexhoppingrevealsitswidespreadartifactsinmultiplexedsinglecellrnasequencing AT hamedsnajafabadi modelbasedanalysisofsampleindexhoppingrevealsitswidespreadartifactsinmultiplexedsinglecellrnasequencing
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Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing

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