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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Autores principales: Rick Farouni, Haig Djambazian, Lorenzo E. Ferri, Jiannis Ragoussis, Hamed S. Najafabadi
Formato: article
Lenguaje:EN
Publicado: Nature Portfolio 2020
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Acceso en línea:https://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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