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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

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

[…] MS/MS 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+; […]


Possible role of the Nipah virus V protein in the regulation of the interferon beta induction by interacting with UBX domain containing protein1

Sci Rep
PMCID: 5955904
PMID: 29769705
DOI: 10.1038/s41598-018-25815-9

[…] ptides were extracted with 5% (v/v) formic acid and acetonitrile, and analyzed with nanoscale liquid chromatography electrospray tandem mass spectrometry. The detected peptides were analyzed with the Mascot search engine. […]


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

[…] nergy 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 []. They we […]


Liquid Biopsy of Vitreous Reveals an Abundant Vesicle Population Consistent With the Size and Morphology of Exosomes

PMCID: 5954840
PMID: 29774170
DOI: 10.1167/tvst.7.3.6

[…] The 15 most abundant ions were selected for MS/MS. Data were searched using the Mascot search engine with the SwissProt Human (forward and reverse appended with common contaminant proteins) database set to carbamidomethyl (C) fixed modification. Variable modification parameters w […]


Region of Interest analysis using mass spectrometry imaging of mitochondrial and sarcomeric proteins in acute cardiac infarction tissue

Sci Rep
PMCID: 5945593
PMID: 29748547
DOI: 10.1038/s41598-018-25817-7
call_split See protocol

[…] MS/MS data were collected using a MALDI-QIT-TOF MS (AXIMA Resonance and MALDI-7090TM; Shimadzu). Spectra were exported to the Mascot search engine (Matrix Science, Boston, MA) using the following search parameters: taxonomy = Homo sapiens; database = SwissProt; MS tolerance = 0.2 Da; MS/MS tolerance = 0.3 Da; enzyme = trypsi […]


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

[…] Compass 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; […]


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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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