ProteoIQ statistics

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ProteoIQ specifications


Unique identifier OMICS_05590
Name ProteoIQ
Software type Package/Module
Interface Graphical user interface
Restrictions to use License purchase required
Operating system Mac OS, Windows
License Commercial
Computer skills Medium
Stability Stable
Maintained Yes


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  • person_outline Beacon Designer Team <>

ProteoIQ in pipeline

PMCID: 3662768
PMID: 23717546
DOI: 10.1371/journal.pone.0064125

[…] for each of 8 fractions per lane, then filtered using peptide and protein probability , grouped by top scoring protein id, and finally quantified by normalized spectral counts (label free) using proteoiq (nusep, athens, ga) , . the filter cut-off values were set with peptide length (>4 aas), peptide probability (>0.5), peptides per protein (≥2 peptides), and protein probability […]

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ProteoIQ in publications

PMCID: 5931682
PMID: 29677181
DOI: 10.1371/journal.pcbi.1006093

[…] the gp120 protein database using sequest (proteome discoverer 1.4, thermo fisher scientific) with full ms peptide tolerance of 20 ppm and ms2 peptide fragment tolerance of 0.5 da, and filtered using proteoiq (v2.7, premier biosoft) at the protein level to generate a 1% false discovery rate for protein assignments. glycan occupancy gai of a potential glycosylation sequon ai was determined […]

PMCID: 5884813
PMID: 29618799
DOI: 10.1038/s41598-018-23371-w

[…] energy of 35.0 with a targeted reject list. dynamic exclusion settings were used with a repeat count of two, repeat duration of 10 s, exclusion list size of 500, and exclusion duration of 30 s., proteoiq (v2.6, was used to validate ms/ms-based peptide and protein identifications. peptides were parsed before analysis with a minimum xcorr value of 1.5 and a minimum length of six […]

PMCID: 5671409
PMID: 29124101
DOI: 10.1016/j.dib.2017.09.060

[…] ions. concatenated databases with both “target” and decoy sequences were utilized to estimate the false discovery rate (fdr), protein identifications were derived from the peptide matches using proteoiq v.2. 3.08 . to provide high confidence on peptide sequence assignment and protein identification, data were filtered following stringent criteria: mowse score of more than 28 for all charge […]

PMCID: 5395146
PMID: 28419115
DOI: 10.1371/journal.pone.0175423

[…] a fixed modification of carbamidomethylation of cysteine; and variable modifications of oxidation of methionine and deamidation of asparagine or glutamine. resulting mascot files were analyzed using proteoiq (premiere biosoft;, where a 5% false discovery rate (fdr) was employed for confirmation of protein identifications., […]

PMCID: 5309953
PMID: 27974568
DOI: 10.1128/JVI.01606-16

[…] and deamidation of asparagine and glutamine were searched as dynamic modifications. the resulting search files were reclustered against the same sequence database for further analysis using proteoiq software (premier biosoft, palo alto, ca). filters of 2 spectra per peptide sequence and 2 peptides per protein were in place for protein assignments. the data were then ranked based […]

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