Determining sequencing depth in a single-cell RNA-seq experiment

For single-cell RNA-seq experiments the sequencing budget is limited, and how it should be optimally allocated to maximize information is not clear. Here the authors develop a mathematical framework to show that, for estimating many gene properties, the optimal allocation is to sequence at the depth...

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Autores principales:	Martin Jinye Zhang, Vasilis Ntranos, David Tse
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Science Q
Acceso en línea:	https://doaj.org/article/eb7cd4d5fdbd475eadea665c0731525d
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id	oai:doaj.org-article:eb7cd4d5fdbd475eadea665c0731525d
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spelling	oai:doaj.org-article:eb7cd4d5fdbd475eadea665c0731525d2021-12-02T14:41:03ZDetermining sequencing depth in a single-cell RNA-seq experiment10.1038/s41467-020-14482-y2041-1723https://doaj.org/article/eb7cd4d5fdbd475eadea665c0731525d2020-02-01T00:00:00Zhttps://doi.org/10.1038/s41467-020-14482-yhttps://doaj.org/toc/2041-1723For single-cell RNA-seq experiments the sequencing budget is limited, and how it should be optimally allocated to maximize information is not clear. Here the authors develop a mathematical framework to show that, for estimating many gene properties, the optimal allocation is to sequence at the depth of one read per cell per gene.Martin Jinye ZhangVasilis NtranosDavid TseNature PortfolioarticleScienceQENNature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Science Q
spellingShingle	Science Q Martin Jinye Zhang Vasilis Ntranos David Tse Determining sequencing depth in a single-cell RNA-seq experiment
description	For single-cell RNA-seq experiments the sequencing budget is limited, and how it should be optimally allocated to maximize information is not clear. Here the authors develop a mathematical framework to show that, for estimating many gene properties, the optimal allocation is to sequence at the depth of one read per cell per gene.
format	article
author	Martin Jinye Zhang Vasilis Ntranos David Tse
author_facet	Martin Jinye Zhang Vasilis Ntranos David Tse
author_sort	Martin Jinye Zhang
title	Determining sequencing depth in a single-cell RNA-seq experiment
title_short	Determining sequencing depth in a single-cell RNA-seq experiment
title_full	Determining sequencing depth in a single-cell RNA-seq experiment
title_fullStr	Determining sequencing depth in a single-cell RNA-seq experiment
title_full_unstemmed	Determining sequencing depth in a single-cell RNA-seq experiment
title_sort	determining sequencing depth in a single-cell rna-seq experiment
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/eb7cd4d5fdbd475eadea665c0731525d
work_keys_str_mv	AT martinjinyezhang determiningsequencingdepthinasinglecellrnaseqexperiment AT vasilisntranos determiningsequencingdepthinasinglecellrnaseqexperiment AT davidtse determiningsequencingdepthinasinglecellrnaseqexperiment
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Determining sequencing depth in a single-cell RNA-seq experiment

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