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Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data

Many functional analysis tools have been developed to extract functional and mechanistic insight from bulk transcriptome data. With the advent of single-cell RNA sequencing (scRNA-seq), it is in principle possible to do such an analysis for single cells. However, scRNA-seq data has characteristics s...

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Main Authors: Holland, Christian H. (Author) , Tanevski, Jovan (Author) , Perales-Patón, Javier (Author) , Gleixner, Jan (Author) , Kumar, Manu P. (Author) , Mereu, Elisabetta (Author) , Joughin, Brian A. (Author) , Stegle, Oliver (Author) , Lauffenburger, Douglas A. (Author) , Heyn, Holger (Author) , Szalai, Bence (Author) , Sáez Rodríguez, Julio (Author)
Format: Article (Journal)
Language:English
Published: 12 February 2020
In: Genome biology
Year: 2020, Volume: 21
ISSN:1474-760X
DOI:10.1186/s13059-020-1949-z
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1186/s13059-020-1949-z
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Author Notes:Christian H. Holland, Jovan Tanevski, Javier Perales-Patón, Jan Gleixner, Manu P. Kumar, Elisabetta Mereu, Brian A. Joughin, Oliver Stegle, Douglas A. Lauffenburger, Holger Heyn, Bence Szalai and Julio Saez-Rodriguez
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Summary:Many functional analysis tools have been developed to extract functional and mechanistic insight from bulk transcriptome data. With the advent of single-cell RNA sequencing (scRNA-seq), it is in principle possible to do such an analysis for single cells. However, scRNA-seq data has characteristics such as drop-out events and low library sizes. It is thus not clear if functional TF and pathway analysis tools established for bulk sequencing can be applied to scRNA-seq in a meaningful way.
Item Description:Gesehen am 02.04.2020
Physical Description:Online Resource
ISSN:1474-760X
DOI:10.1186/s13059-020-1949-z

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