ProteoIQ pipeline

ProteoIQ specifications

Information


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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Maintainer


  • person_outline Beacon Designer Team <>

ProteoIQ citations

 (5)
2017
PMCID: 5319886

[…] spectra were analyzed using sequest (proteome discoverer 1.4, thermo fisher scientific) with a full ms peptide tolerance of 20 ppm and a ms2 peptide fragment tolerance of 0.5 da and filtered using proteoiq (version 2.7, premier biosoft) at the protein level to generate a 1% false discovery rate for protein assignments. site occupancy was calculated using spectral counts of [18o]asp peptides […]

2016
PMCID: 4740439

[…] of 2.0 and 1.0 daltons were used for parent and monoisotopic fragment ions, respectively. the resulting dat files generated by mascot were used as input files for spectral counting using the proteoiq bioinformatics platform (premier biosoft inc) [52] with the constraints that only mascot ion scores of ≥ 30 and only peptides of ≥ 7 amino acids in length were considered […]

2015
PMCID: 4603752

[…] 2014, virus entries excluded; 29,171 entries), which included common contaminants such as digestion enzymes and human keratins., identified peptides were filtered, grouped, and quantified using proteoiq v2.3.04 (premierbiosoft, palo alto, ca). only peptides with charge state of ≥ 2+ and a minimum peptide length of 6 amino acids were accepted for analysis. proteoiq incorporates the two […]

2014
PMCID: 4227561

[…] met). mass tolerances of 2.4 and 1.0 da were used for parent and monoisotopic fragment ions, respectively. the resulting dat files from mascot were used as input files for further analysis using the proteoiq software bioinformatics platform (premier biosoft inc.). protein identifications with a protein false discovery rate (fdr) of ≤1% were calculated using proteoiq’s implementation […]

2011
PMCID: 3222651

[…] was set as oxidation of methionine residues (+16 da) and deamidation of asparagines residues (+1 da). the proteins identified were statistically validated using provalt algorithm as implemented in proteoiq (bioinquire, athens, ga) [51]. only proteins with a false-discovery rate of less than 1% were considered to be statistically significant., m. xanthus cells were grown to a cell density […]

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