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Author Details

J??rgen Cox
Max-Planck Institute of Biochemistry
2006
126
78
Emma Lundberg (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36008611Prediction of peptide mass spectral libraries with machine learning.Nat Biotechnol2023
35245447The proteogenomic subtypes of acute myeloid leukemia.Cancer Cell2022
35585066Deubiquitinating enzymes and the proteasome regulate preferential sets of ubiquitin substrates.Nat Commun2022
35612753MaxQuant Module for the Identification of Genomic Variants Propagated into Peptides.Methods Mol Biol2022
35397162Benchmarking differential expression, imputation and quantification methods for proteomics data.Brief Bioinform2022
35497496Perseus plugin "Metis" for metabolic-pathway-centered quantitative multi-omics data analysis for static and time-series experimental designs.Cell Rep Methods2022
35358274Tracing back variations in archaeal ESCRT-based cell division to protein domain architectures.PLoS One2022
35014260Accurate and Automated High-Coverage Identification of Chemically Cross-Linked Peptides with MaxLynx.Anal Chem2022
34239088MaxDIA enables library-based and library-free data-independent acquisition proteomics.Nat Biotechnol2021
34215750Redirected nuclear glutamate dehydrogenase supplies Tet3 with α-ketoglutarate in neurons.Nat Commun2021
32156793MaxQuant Software for Ion Mobility Enhanced Shotgun Proteomics.Mol Cell Proteomics2020
32032526Defining the Adult Neural Stem Cell Niche Proteome Identifies Key Regulators of Adult Neurogenesis.Cell Stem Cell2020
33065067Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.Structure2020
32892627Isobaric Matching between Runs and Novel PSM-Level Normalization in MaxQuant Strongly Improve Reporter Ion-Based Quantification.J Proteome Res2020
32931150Expanding the Perseus Software for Omics Data Analysis With Custom Plugins.Curr Protoc Bioinformatics2020
32724207Author Correction: The dental proteome of Homo antecessor.Nature2020
32269345The dental proteome of Homo antecessor.Nature2020
30395289The PRIDE database and related tools and resources in 2019: improving support for quantification data.Nucleic Acids Res2019
31723270Enamel proteome shows that Gigantopithecus was an early diverging pongine.Nature2019
33451795MaxQuant.Live Enables Global Targeting of More Than 25,000 Peptides.Mol Cell Proteomics2019
31353208Systematic Detection of Amino Acid Substitutions in Proteomes Reveals Mechanistic Basis of Ribosome Errors and Selection for Translation Fidelity.Mol Cell2019
31601740Sleep-wake cycles drive daily dynamics of synaptic phosphorylation.Science2019
31045356First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study.Anal Chem2019
30755466MaxQuant.Live Enables Global Targeting of More Than 25,000 Peptides.Mol Cell Proteomics2019
31133761High-quality MS/MS spectrum prediction for data-dependent and data-independent acquisition data analysis.Nat Methods2019
29323663Multiplexed proteome analysis with neutron-encoded stable isotope labeling in cells and mice.Nat Protoc2018
29915187EASI-tag enables accurate multiplexed and interference-free MS2-based proteome quantification.Nat Methods2018
29855570MaxQuant goes Linux.Nat Methods2018
30042207The Proteome of Prostate Cancer Bone Metastasis Reveals Heterogeneity with Prognostic Implications.Clin Cancer Res2018
30352176Organellar Proteomics and Phospho-Proteomics Reveal Subcellular Reorganization in Diet-Induced Hepatic Steatosis.Dev Cell2018
30385480Online Parallel Accumulation-Serial Fragmentation (PASEF) with a Novel Trapped Ion Mobility Mass Spectrometer.Mol Cell Proteomics2018
29735998BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes.Nat Methods2018
29344888Perseus: A Bioinformatics Platform for Integrative Analysis of Proteomics Data in Cancer Research.Methods Mol Biol2018
28039739What computational non-targeted mass spectrometry-based metabolomics can gain from shotgun proteomics.Curr Opin Biotechnol2017
29166617Spatiotemporal Proteomic Profiling of Huntington's Disease Inclusions Reveals Widespread Loss of Protein Function.Cell Rep2017
29061669Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in <i>Arabidopsis</i>.Mol Syst Biol2017
28903049A Mass Spectrometry-Based Approach for Mapping Protein Subcellular Localization Reveals the Spatial Proteome of Mouse Primary Neurons.Cell Rep2017
26725330Proteomic maps of breast cancer subtypes.Nat Commun2016
26628587IKAP: A heuristic framework for inference of kinase activities from Phosphoproteomics data.Bioinformatics2016
26651926The Proteome of Primary Prostate Cancer.Eur Urol2016
27841257Glucose-regulated and drug-perturbed phosphoproteome reveals molecular mechanisms controlling insulin secretion.Nat Commun2016
27869121Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry.Nat Commun2016
27809316The MaxQuant computational platform for mass spectrometry-based shotgun proteomics.Nat Protoc2016
27302889Quantitative Cross-linking/Mass Spectrometry Using Isotope-labeled Cross-linkers and MaxQuant.Mol Cell Proteomics2016
27348712The Perseus computational platform for comprehensive analysis of (prote)omics data.Nat Methods2016
27278775Global, quantitative and dynamic mapping of protein subcellular localization.Elife2016
26743511Homology-driven assembly of NOn-redundant protEin sequence sets (NOmESS) for mass spectrometry.Bioinformatics2016
27102203Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome.Genome Med2016
25751058Acetylation site specificities of lysine deacetylase inhibitors in human cells.Nat Biotechnol2015
26457550Secretome Analysis of Lipid-Induced Insulin Resistance in Skeletal Muscle Cells by a Combined Experimental and Bioinformatics Workflow.J Proteome Res2015
  • 1 - 50 of 126

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Collaborators

Matthias Mann
Max-Planck Institute of Biochemistry
Co-authored papers 88
Nagarjuna Nagaraj
Bruker Daltonics GmbH & Co. KG
Co-authored papers 16
Tamar Geiger
Tel Aviv University
Co-authored papers 16
Richard A Scheltema
Utrecht Institute for Pharmaceutical Sciences, Utrecht University
Co-authored papers 5
Boris Ma??ek
Interfaculty Institute for Cell Biology, University of Tubingen
Co-authored papers 4
Georg H H Borner
Max Planck Institute of Biochemistry.
Co-authored papers 4
Ivan Matic
Max Planck Institute for Biology of Ageing
Co-authored papers 4
Yasset Perez-Riverol
EMBL's European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 4
Chunaram Choudhary
The Novo Nordisk Foundation Center for Protein Research, University of Copenhagen
Co-authored papers 4
Albert J R Heck
Utrecht University
Co-authored papers 4
Jens S Andersen
University of Southern Denmark
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Co-authored papers 3
Rosa Viner
University of California (Davis)
Co-authored papers 3
Dmitrij Frishman
Co-authored papers 3
Tomas Marques-Bonet
University of California san francisco
Co-authored papers 3
Andreas-David Brunner
Max-Planck Institute of Biochemistry
Co-authored papers 3
Oliver Kohlbacher
Max Planck Institute for Developmental Biology
Co-authored papers 3
Juri Rappsilber
Institute for Biotechnology, Technical University Berlin
Co-authored papers 3
Juan Antonio Vizca??no
EMBL-European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 3
Christoph H Borchers
McGill University
Co-authored papers 2
Oliver F Lange
Center for Integrated Protein Science, Technische Universitat Munchen
Co-authored papers 2
Petr Nov??k
Institute of Microbiology of the CAS
Co-authored papers 2
Andrea Sinz
Center for Structural Mass Spectrometry, Martin Luther University Halle-Wittenberg
Co-authored papers 2
Robert L Moritz
Institute for Systems Biology
Co-authored papers 2
Carla Schmidt
Johannes Gutenberg University Mainz
Co-authored papers 2
Tobias C Walther
Harvard T. H. Chan School of Public Health
Co-authored papers 2
Mathias Uhl??n
KTH Royal Institute of Technology
Co-authored papers 2
Karl Mechtler
IMP-Institute of Molecular Pathology
Co-authored papers 2
Michael G??tze
and Pharmacy, Freie Universitat Berlin
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ETH Zurich
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