QuSAGE pipeline

QuSAGE specifications


Unique identifier OMICS_09761
Alternative name Quantitative Set Analysis for Gene Expression
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.8.0
Stability Stable
Requirements limma, methods
Maintained Yes


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  • person_outline Christopher R. Bolen <>

Publication for Quantitative Set Analysis for Gene Expression

QuSAGE IN pipeline

PMCID: 4678663
PMID: 26667497
DOI: 10.1186/s40168-015-0133-2

[…] after filtering, the lmfit and ebayes functions were used to perform moderated paired t testing for each gene across visits 1 and 2., at this level, gene set enrichment of isg was performed with the qusage package in r [67], comparing our processed gene lists against those from a prior study of a549 cell lines subjected to α or γ interferon [68]., genes of interest from either group […]

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