0000000000262240

AUTHOR

Alessandro Sette

showing 3 related works from this author

An open-source computational and data resource to analyze digital maps of immunopeptidomes

2015

We present a novel mass spectrometry-based high-throughput workflow and an open-source computational and data resource to reproducibly identify and quantify HLA-associated peptides. Collectively, the resources support the generation of HLA allele-specific peptide assay libraries consisting of consensus fragment ion spectra, and the analysis of quantitative digital maps of HLA peptidomes generated from a range of biological sources by SWATH mass spectrometry (MS). This study represents the first community-based effort to develop a robust platform for the reproducible and quantitative measurement of the entire repertoire of peptides presented by HLA molecules, an essential step towards the de…

Databases FactualimmunopeptidomeQH301-705.5Systems biologyScienceImmunologyComputational biologyBiologyBioinformaticsMass spectrometryGeneral Biochemistry Genetics and Molecular BiologyMass Spectrometry03 medical and health sciencesResource (project management)Fragment (logic)HLA Antigenstargeted mass spectrometryHigh-Throughput Screening AssaysDIAhumanAntigenshuman leukocytes antigenBiology (General)030304 developmental biology0303 health sciencesAntigen PresentationGeneral Immunology and MicrobiologyDigital mappingGeneral Neuroscience030302 biochemistry & molecular biologyQRComputational BiologyGeneral Medicine3. Good healthTools and ResourcesHigh-Throughput Screening AssaysWorkflowTargeted mass spectrometrySWATH-MSMedicinePeptidesComputational and Systems BiologyeLife
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Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE)

2018

Minimal Information about an Immuno-Peptidomics Experiment (MIAIPE) is an initiative of the members of the Human Immuno-Peptidome Project (HIPP), an international program organized by the Human Proteome Organization (HUPO). The aim of the MIAIPE guidelines is to deliver technical guidelines representing the minimal information required to sufficiently support the evaluation and interpretation of immunopeptidomics experiments. The MIAIPE document has been designed to report essential information about sample preparation, mass spectrometric measurement and associated mass spectrometry (MS)-related bioinformatics aspects that are unique to immunopeptidomics and may not be covered by the genera…

Proteomics0301 basic medicineComputer scienceComputational biologyProteomicsBiochemistrySpecimen Handling03 medical and health sciencesStandardisation & GuidelinesHuman proteome projectHumansantigen processing and presentationDatabases ProteinMolecular Biology030102 biochemistry & molecular biologyHistocompatibility Antigens Class IHistocompatibility Antigens Class IIimmunopeptidomicsComputational BiologyMass spectrometricPeptide Fragmentsmajor histocompatibility complex3. Good health030104 developmental biologyComputational Biology/standards; Databases Protein; Histocompatibility Antigens Class I/analysis; Histocompatibility Antigens Class I/immunology; Histocompatibility Antigens Class I/metabolism; Histocompatibility Antigens Class II/analysis; Histocompatibility Antigens Class II/immunology; Histocompatibility Antigens Class II/metabolism; Humans; Peptide Fragments/analysis; Peptide Fragments/immunology; Peptide Fragments/metabolism; Proteomics/standards; Software; Specimen Handling/standards; antigen processing and presentation; immunopeptidomics; major histocompatibility complexSoftwareantigen processing and presentation; immunopeptidomics; major histocompatibility complex
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Author response: An open-source computational and data resource to analyze digital maps of immunopeptidomes

2015

Open sourceResource (project management)DatabaseDigital mappingComputer sciencecomputer.software_genrecomputer
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