Bernhard Kuster

Summary

Affiliation: Cellzome AG
Country: Germany

Publications

  1. ncbi Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Nat Biotechnol 25:1035-44. 2007
  2. pmc Robust and sensitive iTRAQ quantification on an LTQ Orbitrap mass spectrometer
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Mol Cell Proteomics 7:1702-13. 2008
  3. ncbi Scoring proteomes with proteotypic peptide probes
    Bernhard Kuster
    Department of Analytical Sciences and Informatics, Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nat Rev Mol Cell Biol 6:577-83. 2005
  4. ncbi Comprehensive proteomic analysis of human Par protein complexes reveals an interconnected protein network
    Miro Brajenovic
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    J Biol Chem 279:12804-11. 2004
  5. pmc Confident phosphorylation site localization using the Mascot Delta Score
    Mikhail M Savitski
    Cellzome AG, Heidelberg, Germany
    Mol Cell Proteomics 10:M110.003830. 2011
  6. ncbi Measuring and managing ratio compression for accurate iTRAQ/TMT quantification
    Mikhail M Savitski
    Cellzome GmbH, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    J Proteome Res 12:3586-98. 2013
  7. ncbi Quantitative mass spectrometry in proteomics: a critical review
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69254, Heidelberg, Germany
    Anal Bioanal Chem 389:1017-31. 2007
  8. doi Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117, Heidelberg, Germany
    Anal Bioanal Chem 404:939-65. 2012
  9. doi Affinity purification of proteins binding to kinase inhibitors immobilized on self-assembling monolayers
    Marcus Bantscheff
    Cellzome AG, Heidelberg, Germany
    Methods Mol Biol 795:149-60. 2012
  10. ncbi Functional organization of the yeast proteome by systematic analysis of protein complexes
    Anne Claude Gavin
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nature 415:141-7. 2002

Detail Information

Publications24

  1. ncbi Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Nat Biotechnol 25:1035-44. 2007
    ..The data suggest that our approach is a valuable tool for drug discovery...
  2. pmc Robust and sensitive iTRAQ quantification on an LTQ Orbitrap mass spectrometer
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Mol Cell Proteomics 7:1702-13. 2008
    ..This article gives practical guidance for the implementation of PQD, discusses its merits, and for the first time, compares its performance to higher energy collision-induced dissociation...
  3. ncbi Scoring proteomes with proteotypic peptide probes
    Bernhard Kuster
    Department of Analytical Sciences and Informatics, Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nat Rev Mol Cell Biol 6:577-83. 2005
    ..In this article, we propose that the transition from a discovery to a scoring phase is also essential, feasible and imminent for proteomics...
  4. ncbi Comprehensive proteomic analysis of human Par protein complexes reveals an interconnected protein network
    Miro Brajenovic
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    J Biol Chem 279:12804-11. 2004
    ..Our findings suggest co-regulation and/or signaling events between the distinct Par complexes and provide a basis for further elucidation of the molecular mechanisms that govern cell polarity...
  5. pmc Confident phosphorylation site localization using the Mascot Delta Score
    Mikhail M Savitski
    Cellzome AG, Heidelberg, Germany
    Mol Cell Proteomics 10:M110.003830. 2011
    ....
  6. ncbi Measuring and managing ratio compression for accurate iTRAQ/TMT quantification
    Mikhail M Savitski
    Cellzome GmbH, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    J Proteome Res 12:3586-98. 2013
    ..The generic applicability of the fold change correction algorithm was further demonstrated by spiking of chemoproteomics samples into excess amounts of E. coli tryptic digests. ..
  7. ncbi Quantitative mass spectrometry in proteomics: a critical review
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69254, Heidelberg, Germany
    Anal Bioanal Chem 389:1017-31. 2007
    ..In this review, we critically examine the more commonly used quantitative mass spectrometry methods for their individual merits and discuss challenges in arriving at meaningful interpretations of quantitative proteomic data...
  8. doi Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117, Heidelberg, Germany
    Anal Bioanal Chem 404:939-65. 2012
    ..In this review, we focus on the major technical and conceptual developments since 2007 and illustrate these by important recent applications...
  9. doi Affinity purification of proteins binding to kinase inhibitors immobilized on self-assembling monolayers
    Marcus Bantscheff
    Cellzome AG, Heidelberg, Germany
    Methods Mol Biol 795:149-60. 2012
    ..The method can be applied to assess the selectivity of a given kinase inhibitor and thus to guide its preclinical or clinical development...
  10. ncbi Functional organization of the yeast proteome by systematic analysis of protein complexes
    Anne Claude Gavin
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nature 415:141-7. 2002
    ..This higher-order map contains fundamental biological information and offers the context for a more reasoned and informed approach to drug discovery...
  11. ncbi A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway
    Tewis Bouwmeester
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nat Cell Biol 6:97-105. 2004
    ..This systems approach provides significant insight into the logic of the TNF-alpha/NF-kappa B pathway and is generally applicable to other pathways relevant to human disease...
  12. ncbi Affinity purification-mass spectrometry. Powerful tools for the characterization of protein complexes
    Andreas Bauer
    Cellzome AG, Heidelberg, Germany
    Eur J Biochem 270:570-8. 2003
    ....
  13. ncbi A proteome-wide approach identifies sumoylated substrate proteins in yeast
    Vikram Govind Panse
    Biochemie Zentrum der Universitat Heidelberg, Im Neuenheimer Feld 328, 69120 Heidelberg, Germany and Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    J Biol Chem 279:41346-51. 2004
    ..Thus, the identification of a broad range of SUMO-1 substrate proteins is expected to lead to further insight into the regulatory aspects of sumoylation...
  14. ncbi Proteome survey reveals modularity of the yeast cell machinery
    Anne Claude Gavin
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nature 440:631-6. 2006
    ..This study provides the largest collection of physically determined eukaryotic cellular machines so far and a platform for biological data integration and modelling...
  15. ncbi Transgenic mouse proteomics identifies new 14-3-3-associated proteins involved in cytoskeletal rearrangements and cell signaling
    Pierre Olivier Angrand
    Cellzome AG and the European Molecular Biology Laboratory, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Mol Cell Proteomics 5:2211-27. 2006
    ....
  16. pmc Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins
    Francesca Diella
    Cellzome AG, Heidelberg, Germany
    BMC Bioinformatics 5:79. 2004
    ..The fast growing number of research reports on protein phosphorylation points to a general need for an accurate database dedicated to phosphorylation to provide easily retrievable information on phosphoproteins...
  17. ncbi Femtomol sensitivity post-digest (18)O labeling for relative quantification of differential protein complex composition
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Rapid Commun Mass Spectrom 18:869-76. 2004
    ..This paper presents quantification data for a set of standard proteins, as well as a study of differential complex formation around the NFkappaB transcription factor p65 following stimulation with TNF-alpha...
  18. ncbi Profiling core proteomes of human cell lines by one-dimensional PAGE and liquid chromatography-tandem mass spectrometry
    Markus Schirle
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Mol Cell Proteomics 2:1297-305. 2003
    ..The combined dataset for the six cell lines consists of 2341 non-redundant human proteins and thus constitutes one of the largest collections of human proteomic data published to date...
  19. ncbi 90S pre-ribosomes include the 35S pre-rRNA, the U3 snoRNP, and 40S subunit processing factors but predominantly lack 60S synthesis factors
    Paola Grandi
    Cellzome AG, Meyerhofstrasse 1, 69117, Heidelberg, Germany
    Mol Cell 10:105-15. 2002
    ..We conclude that the 40S synthesis machinery predominately associates with the 35S pre-rRNA factors, whereas factors required for 60S subunit synthesis largely bind later, showing an unexpected dichotomy in binding...
  20. ncbi Computational prediction of proteotypic peptides for quantitative proteomics
    Parag Mallick
    Institute for Systems Biology, 1441 N 34th Street, Seattle, Washington 98103, USA
    Nat Biotechnol 25:125-31. 2007
    ..g., digestion, chromatography, ionization and fragmentation)...
  21. ncbi An improved two-step calibration method for matrix-assisted laser desorption/ionization time-of-flight mass spectra for proteomics
    Marcus Bantscheff
    Rapid Commun Mass Spectrom 16:1892-5. 2002
  22. doi Human Proteinpedia enables sharing of human protein data
    Suresh Mathivanan
    Nat Biotechnol 26:164-7. 2008
  23. ncbi A transmembrane tight junction protein selectively expressed on endothelial cells and platelets
    Ines Nasdala
    Institute of Cell Biology, ZMBE, University of Munster, 48149 Munster, Germany
    J Biol Chem 277:16294-303. 2002
    ..The 1G8 antigen supports homophilic interactions on transfected Chinese hamster ovary cells. Based on the similarity to the JAM molecules, it is plausible that the 1G8 antigen might be involved in interendothelial cell adhesion...
  24. ncbi ERCC1/XPF removes the 3' overhang from uncapped telomeres and represses formation of telomeric DNA-containing double minute chromosomes
    Xu Dong Zhu
    The Rockefeller University, New York, NY 10021, USA
    Mol Cell 12:1489-98. 2003
    ....