FastCAR: fast correction for ambient RNA to facilitate differential gene expression analysis in single-cell RNA-sequencing datasets

FastCAR: fast correction for ambient RNA to facilitate differential gene expression analysis in single-cell RNA-sequencing datasets

Abstract Cell type-specific differential gene expression analyses based on single-cell transcriptome datasets are sensitive to the presence of cell-free mRNA in the droplets containing single cells. This so-called ambient RNA contamination may differ between samples obtained from patients and health...

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Bibliographic Details
Main Authors: Marijn Berg, Ilya Petoukhov, Inge van den Ende, Kerstin B. Meyer, Victor Guryev, Judith M. Vonk, Orestes Carpaij, Martin Banchero, Rudi W. Hendriks, Maarten van den Berge, Martijn C. Nawijn
Format: Article
Language:English
Published: BMC 2023-11-01
Series:BMC Genomics
Subjects:
Single cell differential gene expression
Ambient RNA correction
scRNA-seq
sc-DGE
Decontamination
Online Access:https://doi.org/10.1186/s12864-023-09822-3

Internet

https://doi.org/10.1186/s12864-023-09822-3

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