Mascot Percolator statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Mascot Percolator

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Mascot Percolator specifications


Unique identifier OMICS_24950
Name Mascot Percolator
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes


No version available


  • person_outline Jyoti Choudhary

Publications for Mascot Percolator

Mascot Percolator citations


Integrated analysis of transcriptome and proteome changes related to the Ogura cytoplasmic male sterility in cabbage

PLoS One
PMCID: 5846740
PMID: 29529074
DOI: 10.1371/journal.pone.0193462
call_split See protocol

[…] ze the spectra and its target was 3e6 for full MS and 1e5 for MS 2. The m/z scan range was 350~2000 Da for MS scans and 100~1800 Da for MS 2 scans.Protein identification was analyzed with the cutoff: Mascot Percolator [] Q-value < = 0.01 and protein quantification was applied using BGI's IQuant []. Proteins with a 1.2 fold change and a Q-value of less than 0.05 were determined as differentially ex […]


iTRAQ Based Proteomic Analysis Reveals Potential Regulation Networks of IBA Induced Adventitious Root Formation in Apple

Int J Mol Sci
PMCID: 5877528
PMID: 29495482
DOI: 10.3390/ijms19030667
call_split See protocol

[…] e with a confidence interval ≥95% according to the mascot probability scores. Protein quantitation was performed using IQuant software (v2.2.1, BGI-Shenzhen, Shenzhen, China) [], which integrates the Mascot Percolator [] algorithm. Simultaneously, a false discovery rate (FDR) analysis was performed using the strategy of Picked protein FDR []. Low confidence of peptides with a global FDR ≥1% were r […]


Integrated transcriptomic and proteomic analyses reveal potential mechanisms linking thermal stress and depressed disease resistance in the turbot Scophthalmus maximus

Sci Rep
PMCID: 5790011
PMID: 29382883
DOI: 10.1038/s41598-018-20065-1

[…] cessfully identified. Each identified positive protein contained at least one unique peptide. IQuant software was used to quantitatively analyze the labeled peptides with isobaric tags. It integrates Mascot Percolator and advanced statistical algorithms to process the MS/MS signals generated from the peptides labeled by isobaric tags. Any protein changed with a 1.2-fold difference and a corrected […]


Proteomic and microRNA Transcriptome Analysis revealed the microRNA SmyD1 network regulation in Skeletal Muscle Fibers performance of Chinese perch

Sci Rep
PMCID: 5705591
PMID: 29184116
DOI: 10.1038/s41598-017-16718-2

[…] than 0.01. At least one unique peptide was required for each identified protein.An automated software called IQuant for quantitatively analyzing the labeled peptides with isobaric tags. It integrates Mascot Percolator and advanced statistical algorithms to process the MS/MS signals generated from the peptides labeled by isobaric tags. The mean of all labeled samples was used as a reference for cal […]


The Combination of RNA and Protein Profiling Reveals the Response to Nitrogen Depletion in Thalassiosira pseudonana

Sci Rep
PMCID: 5566445
PMID: 28827639
DOI: 10.1038/s41598-017-09546-x

[…] directly using the protein abundance for any given protein. We used p-value < 0.05 and only those with fold changes >1.5 were considered as differentially expressed proteins. In IQuant analysis, the mascot percolator algorithm methods was combined and protein-level FDR < = 0.01 was used to decrease the false positive rate. The statistical analysis refers to permutation tests which have been widel […]


Data for transcriptomic and proteomic analyses of leaves from Clematis terniflora DC. under binary stress

PMCID: 5387894
PMID: 28417099
DOI: 10.1016/j.dib.2017.03.021

[…] , fragment mass tolerance was set at 0.8 Da, and peptide charges were set at +2, +3, and +4. An automatic decoy database search was performed as part of the search. Mascot data were filtered with the Mascot percolator to improve the accuracy and sensitivity of peptide identification . False discovery rates for peptide identification of all searches were less than 1.0%. Peptides with a percolator i […]

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Mascot Percolator institution(s)
Proteomic Mass Spectrometry, Wellcome Trust Sanger Institute, Hinxton,UK; Science for Life Laboratory, School of Biotechnology, Royal Institute of Technology (KTH), Solna, Sweden
Mascot Percolator funding source(s)
Supported by the Wellcome Trust [079643/Z/06/Z].

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