ASC specifications


Unique identifier OMICS_01298
Name ASC
Alternative name Analysis of Sequence Counts
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Version 0.1.4
Stability Stable
Maintained Yes




No version available


  • person_outline Zhijin Wu

Publication for Analysis of Sequence Counts

ASC citations


Identifying reference genes with stable expression from high throughput sequence data

Front Microbiol
PMCID: 3494082
PMID: 23162540
DOI: 10.3389/fmicb.2012.00385

[…] rticularly true of transcriptome datasets whereby genes with stable expression can be identified between treatment conditions. Two statistical techniques, k-means clustering (Hartigan and Wong, ) and analysis of sequence counts (ASC) (Wu et al., ), usually used to investigate patterns of differential expression in transcriptome datasets, show promise in this regard. The k-means algorithm is a part […]


The Transcriptome and Proteome of the Diatom Thalassiosira pseudonana Reveal a Diverse Phosphorus Stress Response

PLoS One
PMCID: 3315573
PMID: 22479440
DOI: 10.1371/journal.pone.0033768

[…] ing array, DGE, or SAGE studies , – with non-model organisms, like phytoplankton, where the transcriptome size is uncertain.Differential expression patterns were determined on the sequence tags using Analysis of Sequence Counts (ASC) . A total of 1382 differentially regulated sequence tags were detected in this dataset with an estimated false discovery rate <0.05 using ASC. Analysis of the 50 most […]

ASC institution(s)
Center for Statistical Sciences and Department of Community Health, Brown University, Providence, RI, USA; Department of Cell and Molecular Biology, University of Rhode Island, Kingston, RI, USA; The Graduate School of Oceanography, University of Rhode Island, Narragansett, RI, USA; Biology Department, Woods Hole Oceanographic Institution, Woods Hole, MA, USA; Marine Chemistry and Geochemistry Department, Woods Hole Oceanographic Institution, Woods Hole, MA, USA
ASC funding source(s)
Supported by NSF OCE-0723677.

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