2021
MhcVizPipe: A Quality Control Software for Rapid Assessment of Small- to Large-Scale Immunopeptidome Datasets
Kovalchik K, Ma Q, Wessling L, Saab F, Duquette J, Kubiniok P, Hamelin D, Faridi P, Li C, Purcell A, Jang A, Paramithiotis E, Tognetti M, Reiter L, Bruderer R, Lanoix J, Bonneil É, Courcelles M, Thibault P, Caron E, Sirois I. MhcVizPipe: A Quality Control Software for Rapid Assessment of Small- to Large-Scale Immunopeptidome Datasets. Molecular & Cellular Proteomics 2021, 21: 100178. PMID: 34798331, PMCID: PMC8717601, DOI: 10.1016/j.mcpro.2021.100178.Peer-Reviewed Original ResearchConceptsModern web browsersLarge-scale datasetsQuality control softwareWeb browserHTML formatControl softwareSoftware toolsProteomics core facilitiesConsolidated viewDatasetImmunopeptidomic datasetsHigh-throughput technologiesDecision-making processData interpretationBrowserInstrument operatorsComputerAssurance systemAlgorithmQuality controlSoftwareCore facilitiesFormatServicesTechnologyRHybridFinder: An R package to process immunopeptidomic data for putative hybrid peptide discovery
Saab F, Hamelin D, Ma Q, Kovalchik K, Sirois I, Faridi P, Li C, Purcell A, Kubiniok P, Caron E. RHybridFinder: An R package to process immunopeptidomic data for putative hybrid peptide discovery. STAR Protocols 2021, 2: 100875. PMID: 34746858, PMCID: PMC8551247, DOI: 10.1016/j.xpro.2021.100875.Peer-Reviewed Original Research
2020
The SysteMHC Atlas: a Computational Pipeline, a Website, and a Data Repository for Immunopeptidomic Analyses
Shao W, Caron E, Pedrioli P, Aebersold R. The SysteMHC Atlas: a Computational Pipeline, a Website, and a Data Repository for Immunopeptidomic Analyses. Methods In Molecular Biology 2020, 2120: 173-181. PMID: 32124319, DOI: 10.1007/978-1-0716-0327-7_12.Peer-Reviewed Original Research
2018
Minimal Information About an Immuno‐Peptidomics Experiment (MIAIPE)
Lill J, van Veelen P, Tenzer S, Admon A, Caron E, Elias J, Heck A, Marcilla M, Marino F, Müller M, Peters B, Purcell A, Sette A, Sturm T, Ternette N, Vizcaíno J, Bassani‐Sternberg M. Minimal Information About an Immuno‐Peptidomics Experiment (MIAIPE). Proteomics 2018, 18: 1800110. PMID: 29791771, PMCID: PMC6033177, DOI: 10.1002/pmic.201800110.Peer-Reviewed Original Research