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switchde: inference of switch-like differential expression along single-cell trajectories

Abstract:

MOTIVATION: Pseudotime analyses of single-cell RNA-seq data have become increasingly common. Typically, a latent trajectory corresponding to a biological process of interest - such as differentiation or cell cycle - is discovered. However, relatively little attention has been paid to modelling the differential expression of genes along such trajectories.
RESULTS: We present switchde, a statistical framework and accompanying R package for identifying switch-like differential expres...

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Publication status:
Published
Peer review status:
Peer reviewed

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Publisher copy:
10.1093/bioinformatics/btw798

Authors


More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
Human Genetics Wt Centre
Role:
Author
More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
Human Genetics Wt Centre
Role:
Author
More from this funder
Grant:
Core Award Grant Number 090532/Z/09/Z
Li Ka Shing Foundation More from this funder
John Fell Fund More from this funder
Publisher:
Oxford University Press Publisher's website
Journal:
Bioinformatics Journal website
Volume:
33
Issue:
8
Pages:
1241-1242
Publication date:
2016-12-23
Acceptance date:
2016-12-09
DOI:
EISSN:
1367-4811
ISSN:
1460-2059
Language:
English
Pubs id:
pubs:667541
UUID:
uuid:6ce77e7d-c929-4cd1-94b1-83fbe7d6956e
Local pid:
pubs:667541
Deposit date:
2017-01-10

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