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IsoQuant specifications


Unique identifier OMICS_02519
Name IsoQuant
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Windows
Programming languages C#
Computer skills Medium
Stability Stable
Maintained Yes


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  • person_outline Austin J. Yang <>

Publication for IsoQuant

IsoQuant in publications

PMCID: 5865745
PMID: 29570734
DOI: 10.1371/journal.pone.0194734

[…] peptide and peptide fragment mass tolerances. protein identification searches using plgs had a false discovery rate of no more than 5%., results for two technical replicates were tabulated utilizing isoquant []. the final data summary lists only proteins identified by at least 2 unique peptides at a false discovery rate (fdr) less than 3% in both replicates. proteins were quantified using […]

PMCID: 5574971
PMID: 28932097
DOI: 10.1186/s13660-017-1459-z

[…] data, and dmu e is the evaluated dmu, then the production possibility set is spanned by dmus a, b, c and d. as shown in figure , the solid line segments connecting points a, b, c and d constitute an isoquant that represents the different input amounts to produce the same output amount. since it is impossible to reduce the amount of one of the inputs without increasing another input amount if one […]

PMCID: 5517573
PMID: 28724900
DOI: 10.1038/s41598-017-05949-y

[…] number of false positives., we also used data from kuharev et al. for benchmarking differential expression in dia data. the data was originally used for testing three different software packages (isoquant, progenesis and synapter) for processing mse  and udmse  dia data. the data consists of two hybrid proteome samples of known composition, both with five technical replicates. the samples […]

PMCID: 5620533
PMID: 28698516
DOI: 10.3390/proteomes5030016

[…] determined peptide and peptide fragment mass tolerances and protein identifications were limited to less than 5% fdr. information from the plgs analysis was then processed and summarized using isoquant [] to resolve homology and quantitate proteins. analysis in isoquant limited both peptide and protein identifications to less than 1% fdr. protein quantitation using the top3 method […]

PMCID: 5506394
PMID: 28730180
DOI: 10.1515/med-2017-0031

[…] the dea model can be presented by a mathematical form, illustrating the relation of inputs and outputs []: minθ,λθ,st−qi+qλ≥0,θxi−xλ≥0,λ≥0., the efficiency frontier of this segment represents the isoquant, which is determined based on our gathered data points, namely based on the providers being observed in our sample. the presented model enables us to calculate measures of technical […]

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IsoQuant institution(s)
Greenebaum Cancer Center, University of Maryland, Baltimore, MD, USA

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