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Droplet scRNA-seq is not zero-inflated

Svensson, Valentine (2019) Droplet scRNA-seq is not zero-inflated. . (Unpublished) http://resolver.caltech.edu/CaltechAUTHORS:20190319-111610182

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Abstract

Potential users of single cell RNA-sequencing often encounter a choice between high-throughput droplet based methods and high sensitivity plate based methods. In particular there is a widespread belief that single-cell RNA-sequencing will often fail to generate measurements for particular gene, cell pairs due to molecular inefficiencies, causing data to have an overabundance of zero-values. Investigation of published data of technical controls in droplet based single cell RNA-seq experiments demonstrates the number of zeros in the data is consistent with count statistics, indicating that over-abundances of zero-values in biological data are likely due to biological variation as opposed to technical shortcomings.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
https://doi.org/10.1101/582064DOIDiscussion Paper
https://www.biorxiv.org/content/10.1101/582064v1OrganizationDiscussion Paper
https://github.com/vals/Blog/tree/master/171116-zero-inflationRelated ItemCode
ORCID:
AuthorORCID
Svensson, Valentine0000-0002-9217-2330
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. bioRxiv preprint first posted online Mar. 19, 2019. All analysis and figure generation functions are available in a notebook at the same figshare project as the data, as well as on Github3.
Record Number:CaltechAUTHORS:20190319-111610182
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20190319-111610182
Official Citation:Droplet scRNA-seq is not zero-inflated. Valentine Svensson. bioRxiv 582064; doi: https://doi.org/10.1101/582064
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:93970
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:19 Mar 2019 18:21
Last Modified:19 Mar 2019 18:21

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