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QuickMod specifications

Information


Unique identifier OMICS_06896
Name QuickMod
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Erik Ahrné <>

Publication for QuickMod

QuickMod in publications

 (3)
PMCID: 4686967
PMID: 26691135
DOI: 10.1371/journal.pone.0145328

[…] ncbi database http://blast.ncbi.nlm.nih.gov/blast.cgi and the uniprot database website. protein hits were considered to be significant when their e-value was below 10−5., an adapted version of the quickmod software [] was used to search for unidentified modifications in the ms/ms data of map1 (erga_cds_09160) and the porin_05140 (erga_cds_05140) protein spots. first, all map1 or porin_05140 […]

PMCID: 4888949
PMID: 26641532
DOI: 10.1038/nbt.3418

[…] was created using liberator and deliberator applying default parameters. next all ms/ms spectra from all samples were screened against this spectral library in an open modification search using quickmod (v.1.03). the search parameters of quickmod were set to: fragment mass tolerance 0.06 da, modification mass tolerance 150 da, false discovery rate cutoff 0.01, while default values were used […]

PMCID: 3287473
PMID: 22373085
DOI: 10.1186/1471-2105-12-S14-S8

[…] proposed method showed excellent performance in the test with simulated spectra having various ptms including peptide modifiers and in the comparison with recently developed methods such as quickmod and summon. in the analysis of hupo brain proteome project (bpp) datasets, the proposed method could find the ubiquitin modification sites that were not identified by other conventional […]


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QuickMod institution(s)
Swiss Institute of Bioinformatics, Proteome Informatics Group, Geneva, Switzerland

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