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Author Details

Patrick G A Pedrioli
Institute of Translational Medicine, Swiss Federal Institute of Technology/ETH Zurich
2004
39
27
PMIDPaper TitleJournal TitlePublished Year
36717752Integrated multi-omics reveals anaplerotic rewiring in methylmalonyl-CoA mutase deficiency.Nat Metab2023
35724564PCfun: a hybrid computational framework for systematic characterization of protein complex function.Brief Bioinform2022
33450210Mitochondrial NAD<sup>+</sup> Controls Nuclear ARTD1-Induced ADP-Ribosylation.Mol Cell2021
34432947Diagnostics and correction of batch effects in large-scale proteomic studies: a tutorial.Mol Syst Biol2021
34677978Reproducible Determination of High-Density Lipoprotein Proteotypes.J Proteome Res2021
31552638Review of Batch Effects Prevention, Diagnostics, and Correction Approaches.Methods Mol Biol2020
33159075Author Correction: Surfaceome dynamics reveal proteostasis-independent reorganization of neuronal surface proteins during development and synaptic plasticity.Nat Commun2020
33020478Surfaceome dynamics reveal proteostasis-independent reorganization of neuronal surface proteins during development and synaptic plasticity.Nat Commun2020
32124319The SysteMHC Atlas: a Computational Pipeline, a Website, and a Data Repository for Immunopeptidomic Analyses.Methods Mol Biol2020
31844046Classification of mouse B cell types using surfaceome proteotype maps.Nat Commun2019
28985418The SysteMHC Atlas project.Nucleic Acids Res2018
30084848A tissue-based draft map of the murine MHC class I immunopeptidome.Sci Data2018
29476520Methodology for Urine Peptidome Analysis Based on Nano-HPLC Coupled to Fourier Transform Ion Cyclotron Resonance Mass Spectrometry.Methods Mol Biol2018
28825704Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses.Nat Methods2017
28223351<i>In Vivo</i> and <i>in Vitro</i> Proteome Analysis of Human Immunodeficiency Virus (HIV)-1-infected, Human CD4<sup>+</sup> T Cells.Mol Cell Proteomics2017
25870413Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures.Nucleic Acids Res2015
24647965Phosphorylation of Parkin at Serine65 is essential for activation: elaboration of a Miro1 substrate-based assay of Parkin E3 ligase activity.Open Biol2014
24885147VAPB/ALS8 interacts with FFAT-like proteins including the p97 cofactor FAF1 and the ASNA1 ATPase.BMC Biol2014
23294059Hydrophilic strong anion exchange (hSAX) chromatography for highly orthogonal peptide separation of complex proteomes.J Proteome Res2013
23836657tRNA tKUUU, tQUUG, and tEUUC wobble position modifications fine-tune protein translation by promoting ribosome A-site binding.Proc Natl Acad Sci U S A2013
23986494Activation of the canonical IKK complex by K63/M1-linked hybrid ubiquitin chains.Proc Natl Acad Sci U S A2013
23455478Ubiquitylation-dependent localization of PLK1 in mitosis.Nat Cell Biol2013
23398456The P-body component USP52/PAN2 is a novel regulator of HIF1A mRNA stability.Biochem J2013
23241891PGE(2) induces macrophage IL-10 production and a regulatory-like phenotype via a protein kinase A-SIK-CRTC3 pathway.J Immunol2013
22723946The IkappaB kinase family phosphorylates the Parkinson's disease kinase LRRK2 at Ser935 and Ser910 during Toll-like receptor signaling.PLoS One2012
23033494Phosphorylation of CRTC3 by the salt-inducible kinases controls the interconversion of classically activated and regulatory macrophages.Proc Natl Acad Sci U S A2012
20029837An improved SUMmOn-based methodology for the identification of ubiquitin and ubiquitin-like protein conjugation sites identifies novel ubiquitin-like protein chain linkages.Proteomics2010
21113133RNAi-based screening identifies the Mms22L-Nfkbil2 complex as a novel regulator of DNA replication in human cells.EMBO J2010
21177495Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.Sci Signal2010
20013374Trans-proteomic pipeline: a pipeline for proteomic analysis.Methods Mol Biol2010
19145231Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA.Nature2009
19180541Using mass spectrometry to identify ubiquitin and ubiquitin-like protein conjugation sites.Proteomics2009
19047990Urm1 at the crossroad of modifications. 'Protein Modifications: Beyond the Usual Suspects' Review Series.EMBO Rep2008
17450130A high-quality catalog of the Drosophila melanogaster proteome.Nat Biotechnol2007
17940529PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells.Mol Syst Biol2007
17372656An integrated chemical, mass spectrometric and computational strategy for (quantitative) phosphoproteomics: application to Drosophila melanogaster Kc167 cells.Mol Biosyst2007
16791211Automated identification of SUMOylation sites using mass spectrometry and SUMmOn pattern recognition software.Nat Methods2006
15228367A tool to visualize and evaluate data obtained by liquid chromatography-electrospray ionization-mass spectrometry.Anal Chem2004
15529173A common open representation of mass spectrometry data and its application to proteomics research.Nat Biotechnol2004
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Collaborators

Ruedi Aebersold
Institute of Molecular Systems Biology, ETH Zurich
Co-authored papers 17
Bernd Wollscheid
ETH Zurich
Co-authored papers 6
Wenguang Shao
Institute of Molecular Systems Biology, ETH Zurich
Co-authored papers 5
Matthias Peter
Institute of Biochemistry, ETH Zurich
Co-authored papers 5
Brian Raught
Princess Margaret Cancer Centre, University Health Network
Co-authored papers 4
Eric W Deutsch
Institute for Systems Biology
Co-authored papers 4
David S Campbell
Co-authored papers 4
Sandra Goetze
ETH Zurich
Co-authored papers 3
Alexey I Nesvizhskii
University of Michigan ann arbor
Co-authored papers 3
Ben C Collins
Queen's University of Belfast
Co-authored papers 3
Bernd Bodenmiller
University of Zurich
Co-authored papers 3
Jimmy K Eng
University of Washington
Co-authored papers 3
Albert J R Heck
Utrecht University
Co-authored papers 2
Nathanael S Gray
Harvard Medical School
Co-authored papers 2
Dario R Alessi
University of Dundee
Co-authored papers 2
Alexander Schmidt
Co-authored papers 2
Catherine E Costello
Center for Biomedical Mass Spectrometry, Boston University
Co-authored papers 2
Clare Johnson
College of Life Sciences, University of Dundee
Co-authored papers 2
Mar??a Rodr??guez Mart??nez
Herbert Irving Cancer Research Center, Columbia University Medical Center
Co-authored papers 2
Evan G Williams
University of Luxembourg
Co-authored papers 2
Anthony W Purcell
Monash Biomedicine Discovery Institute, Monash University
Co-authored papers 2
Lukas N Mueller
Co-authored papers 2
Lukas Reiter
Co-authored papers 2
Robert L Moritz
Institute for Systems Biology
Co-authored papers 2
Garry P Nolan
Stanford University School of Medicine
Co-authored papers 1
Charles Boone
University of Toronto
Co-authored papers 1
Juan Antonio Vizca??no
EMBL-European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 1
Paul Shannon
Institute for Systems Biology
Co-authored papers 1
Michael J MacCoss
University of Washington
Co-authored papers 1
Alessandro Sette
Center for Infectious Disease and Vaccine Research, La Jolla Institute for Immunology
Co-authored papers 1
Release 1.2