2023
The SysteMHC Atlas v2.0, an updated resource for mass spectrometry-based immunopeptidomics
Huang X, Gan Z, Cui H, Lan T, Liu Y, Caron E, Shao W. The SysteMHC Atlas v2.0, an updated resource for mass spectrometry-based immunopeptidomics. Nucleic Acids Research 2023, 52: d1062-d1071. PMID: 38000392, PMCID: PMC10767952, DOI: 10.1093/nar/gkad1068.Peer-Reviewed Original Research
2021
RHybridFinder: 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
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
2016
Contribution of Mass Spectrometry-Based Proteomics to the Understanding of TNF‑α Signaling
Ciuffa R, Caron E, Leitner A, Uliana F, Gstaiger M, Aebersold R. Contribution of Mass Spectrometry-Based Proteomics to the Understanding of TNF‑α Signaling. Journal Of Proteome Research 2016, 16: 14-33. PMID: 27762135, DOI: 10.1021/acs.jproteome.6b00728.Peer-Reviewed Original ResearchConceptsTNF-α signalingProteomics researchDimeric transcription factorsComplex signaling cascadesSystems-level understandingProteome levelProteomic landscapeCellular processesTranscription factorsSignaling cascadesNF-κBSignalingLevel understandingMass spectrometryProteomeActivationProteomicsSpite of decadesCytokines IL-1βDifferentiationLimited knowledgePathwayCascadeFamilyTNF
2014
A repository of assays to quantify 10,000 human proteins by SWATH-MS
Rosenberger G, Koh CC, Guo T, Röst HL, Kouvonen P, Collins BC, Heusel M, Liu Y, Caron E, Vichalkovski A, Faini M, Schubert OT, Faridi P, Ebhardt HA, Matondo M, Lam H, Bader SL, Campbell DS, Deutsch EW, Moritz RL, Tate S, Aebersold R. A repository of assays to quantify 10,000 human proteins by SWATH-MS. Scientific Data 2014, 1: 140031. PMID: 25977788, PMCID: PMC4322573, DOI: 10.1038/sdata.2014.31.Peer-Reviewed Original Research