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Mascot Server specifications


Unique identifier OMICS_02398
Name Mascot Server
Alternative name Mascot search engine
Interface Web user interface, Application programming interface
Restrictions to use License purchase required
Computer skills Basic
Version 2.6.1
Stability Stable
Maintained Yes


  • Mascot Daemon


  • person_outline Gonçalo Abecasis <>
  • person_outline Christian Fuchsberger <>
  • person_outline Mascot Team <>

Publication for Mascot Server

Mascot Server citations


Smooth muscle like Ca2+ regulation of actin–myosin interaction in adult jellyfish striated muscle

PMCID: 5958069
PMID: 29773804
DOI: 10.1038/s41598-018-24817-x

[…] spectra of the major peptide ions observed were subjected, respectively to peptide mass fingerprinting (pmf) and ms/ms ions search (mis), using the transcrisptome database registered on a local mascot server (version 2.2.07, matrix science). the following parameters were used: allowance of one (trypsin) or no (lysylendopeptidase) missed cleavage; mass tolerance, ±0.4 da; peptide charge, 1+; […]


Helicobacter suis binding to carbohydrates on human and porcine gastric mucins and glycolipids occurs via two modes

PMCID: 5955484
PMID: 29638186
DOI: 10.1080/21505594.2018.1460979

[…] of -35 ev, an isolation width of m/z 1.0, an activation q value of 0.250, and a time of 30 ms were used. peptide ms/ms spectra were searched against uniprot and ncbi pig protein databases using mascot server (v.2.2.04, matrix science inc., ma, usa) with in-house build mucin database. the amino acid sequences of the sus scrofa muc5ac and muc5b homologs were previously only partial []. […]


Simulated microgravity induces a cellular regression of the mature phenotype in human primary osteoblasts

PMCID: 5945613
PMID: 29760957
DOI: 10.1038/s41420-018-0055-4

[…] dataanalysis 4.0 software (bruker daltonics) was used for data processing. generated mgf files were then merged per lane and used for database search (swissprot, version 20150612) through the mascot daemon application included in an in-house mascot server (version 2.5, matrix science, london, uk) with the following constraints: taxonomy = homo sapiens (20,207 sequences); enzyme = trypsin; […]


HIV 1 tat expression and sulphamethoxazole hydroxylamine mediated oxidative stress alter the disulfide proteome in Jurkat T cells

PMCID: 5944096
PMID: 29743079
DOI: 10.1186/s12985-018-0991-x

[…] peptide mass fingerprints (pmf) using the data explorer software (applied biosystems, foster city, ca, usa). protein identification from these pmf was generated using a gps engine connected to a mascot server provided by the software manufacturer. pmf were compared to known peptide mass sequences in the ncbi (national center for biotechnological information) database and samples with a pmf […]


Alterations of proteome, mitochondrial dynamic and autophagy in the hypothalamus during activity based anorexia

PMCID: 5940678
PMID: 29740148
DOI: 10.1038/s41598-018-25548-9

[…] (3–80% acetonitrile in 0.1% formic acid). then, the eluent was analyzed with a q-tof or ion trap mass spectrometer., for protein identification, ms/ms peak list were extracted and compared with mascot daemon version 2.2.2 (matrix science, boston, ma) server, using the following parameters: enzyme specificity, trypsin; no restriction on protein molecular weight; one missed cleavage […]


The Rab11 binding protein RELCH/KIAA1468 controls intracellular cholesterol distribution

PMCID: 5940305
PMID: 29514919
DOI: 10.1083/jcb.201709123

[…] (thermo fisher scientific) mass spectrometer at osaka university center for medical research and education. the database search was conducted using proteinlynx global server (v.2.4; waters corp.) or mascot server (v.2.3; matrix science) software and the international protein index database (mouse; v.3.77 or 3.87; embl-ebi)., the yeast two-hybrid assay was performed as previously described (). […]

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Mascot Server institution(s)
Department of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA; Division of Genetic Epidemiology, Department of Medical Genetics, Molecular and Clinical Pharmacology, Medical University of Innsbruck, Innsbruck, Austria; Istituto di Ricerca Genetica e Biomedica, CNR, Monserrato, Cagliari, Italy; Dipartimento di Scienze Biomediche, Università degli Studi di Sassari, Sassari, Italy; Institute for Behavioral Genetics, University of Colorado, Boulder, CO, USA; Clinical Trials Branch, Division of Epidemiology and Clinical Applications, National Eye Institute, US National Institutes of Health, Bethesda, MD, USA; HudsonAlpha Institute for Biotechnology, Huntsville, AL,USA; Department of Psychology, University of Minnesota, Minneapolis, MN, USA; Laboratory of Genetics, National Institute on Aging, US National Institutes of Health, Baltimore, MD, USA; Department of Genetics, University of Pennsylvania, Philadelphia, PA, USA; Department of Epidemiology, Harvard TH Chan School of Public Health, Boston, MA, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA; Department of Psychology, University of Minnesota, Minneapolis, MN, USA; Neurobiology-Neurodegeneration and Repair Laboratory, National Eye Institute, US National Institutes of Health, Bethesda, MD, USA

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