Marcus Bantscheff

Summary

Affiliation: Cellzome AG
Country: Germany

Publications

  1. doi request reprint Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes
    Marcus Bantscheff
    Cellzome AG, Heidelberg, Germany
    Nat Biotechnol 29:255-65. 2011
  2. ncbi request reprint Quantitative mass spectrometry in proteomics: a critical review
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69254, Heidelberg, Germany
    Anal Bioanal Chem 389:1017-31. 2007
  3. doi request reprint 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
  4. pmc Hsp90 inhibition differentially destabilises MAP kinase and TGF-beta signalling components in cancer cells revealed by kinase-targeted chemoproteomics
    Armin Haupt
    Department of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany
    BMC Cancer 12:38. 2012
  5. doi request reprint Chemoproteomic approaches to drug target identification and drug profiling
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Bioorg Med Chem 20:1973-8. 2012
  6. 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
  7. ncbi request reprint 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
  8. pmc Confident phosphorylation site localization using the Mascot Delta Score
    Mikhail M Savitski
    Cellzome AG, Heidelberg, Germany
    Mol Cell Proteomics 10:M110.003830. 2011
  9. doi request reprint Determination of kinase inhibitor potencies in cell extracts by competition binding assays and isobaric mass tags
    Carsten Hopf
    Cellzome AG, Heidelberg, Germany
    Methods Mol Biol 803:141-55. 2012
  10. ncbi request reprint 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

Collaborators

Detail Information

Publications33

  1. doi request reprint Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes
    Marcus Bantscheff
    Cellzome AG, Heidelberg, Germany
    Nat Biotechnol 29:255-65. 2011
    ..Our approach enables the discovery of novel targets and inhibitors and suggests that the selectivity of HDAC inhibitors should be evaluated in the context of HDAC complexes and not purified catalytic subunits...
  2. ncbi request reprint 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...
  3. doi request reprint 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...
  4. pmc Hsp90 inhibition differentially destabilises MAP kinase and TGF-beta signalling components in cancer cells revealed by kinase-targeted chemoproteomics
    Armin Haupt
    Department of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany
    BMC Cancer 12:38. 2012
    ..However, its inhibition in healthy cells could also lead to severe side effects. This is the first comprehensive analysis of the response to Hsp90 inhibition at the kinome level...
  5. doi request reprint Chemoproteomic approaches to drug target identification and drug profiling
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Bioorg Med Chem 20:1973-8. 2012
    ....
  6. 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...
  7. ncbi request reprint 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. ..
  8. pmc Confident phosphorylation site localization using the Mascot Delta Score
    Mikhail M Savitski
    Cellzome AG, Heidelberg, Germany
    Mol Cell Proteomics 10:M110.003830. 2011
    ....
  9. doi request reprint Determination of kinase inhibitor potencies in cell extracts by competition binding assays and isobaric mass tags
    Carsten Hopf
    Cellzome AG, Heidelberg, Germany
    Methods Mol Biol 803:141-55. 2012
    ..The method employs quantitative mass spectrometry using isobaric mass tags which enables determination of potency for a large number of target proteins in a single analysis...
  10. ncbi request reprint 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...
  11. doi request reprint High-resolution enabled TMT 8-plexing
    Thilo Werner
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Anal Chem 84:7188-94. 2012
    ..The increased multiplexing rate enabled determination of inhibitor potencies in chemoproteomic kinase assays covering a wider range of compound concentrations in a single experiment, compared to conventional 6-plex TMT-based assays...
  12. doi request reprint Delayed fragmentation and optimized isolation width settings for improvement of protein identification and accuracy of isobaric mass tag quantification on Orbitrap-type mass spectrometers
    Mikhail M Savitski
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Anal Chem 83:8959-67. 2011
    ..When delayed peptide fragmentation and narrow isolation width settings were both applied, cofragmentation-induced ratio compression could be reduced by 32% on a log2 scale under otherwise identical conditions...
  13. doi request reprint Targeted data acquisition for improved reproducibility and robustness of proteomic mass spectrometry assays
    Mikhail M Savitski
    Department of Analytical Sciences, Cellzome AG, Heidelberg, Germany
    J Am Soc Mass Spectrom 21:1668-79. 2010
    ..We have observed excellent reproducibility between different instruments, underlining the robustness of the approach...
  14. doi request reprint Mass spectrometry approaches to monitor protein-drug interactions
    Nico Zinn
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Methods 57:430-40. 2012
    ..This review provides an overview of current methods for the characterization of drug-target interactions by mass spectrometry and describes a protocol for chemoproteomic target binding studies using immobilized bioactive molecules...
  15. ncbi request reprint Ion coalescence of neutron encoded TMT 10-plex reporter ions
    Thilo Werner
    Cellzome GmbH, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Anal Chem 86:3594-601. 2014
    ..The coalescence artifact was completely removed by lowering the maximum ion target for MS2 spectra from 1e6 to 2e5 without any losses in identification depth or quantification quality of proteins. ..
  16. doi request reprint 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...
  17. doi request reprint Evaluation of data analysis strategies for improved mass spectrometry-based phosphoproteomics
    Mikhail M Savitski
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Anal Chem 82:9843-9. 2010
    ....
  18. doi request reprint H-score, a mass accuracy driven rescoring approach for improved peptide identification in modification rich samples
    Mikhail M Savitski
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    J Proteome Res 9:5511-6. 2010
    ..When applied on a kinase-enriched sample containing only a few modifications, a smaller but still significant gain of 5% was observed...
  19. doi request reprint The commonly used PI3-kinase probe LY294002 is an inhibitor of BET bromodomains
    Antje Dittmann
    Cellzome GmbH, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    ACS Chem Biol 9:495-502. 2014
    ....
  20. doi request reprint Affinity profiling of the cellular kinome for the nucleotide cofactors ATP, ADP, and GTP
    Isabelle Becher
    Cellzome GmbH, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    ACS Chem Biol 8:599-607. 2013
    ..This extensive and consistent data set of kinase-nucleotide affinities, determined for native enzymes under defined experimental conditions, will represent a useful resource for kinase drug discovery...
  21. doi request reprint A selective inhibitor reveals PI3Kγ dependence of T(H)17 cell differentiation
    Giovanna Bergamini
    Cellzome AG, Heidelberg, Germany
    Nat Chem Biol 8:576-82. 2012
    ....
  22. doi request reprint Revealing promiscuous drug-target interactions by chemical proteomics
    Marcus Bantscheff
    Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Drug Discov Today 14:1021-9. 2009
    ..This information can contribute toward optimization of candidate drug molecules and reduction of side effects. In this review, we describe recent advances in chemical proteomics and outline potential applications in drug discovery...
  23. ncbi request reprint Pathway proteomics and chemical proteomics team up in drug discovery
    Carsten Hopf
    Cellzome AG, Department of Discovery Research, Heidelberg, Germany
    Neurodegener Dis 4:270-80. 2007
    ..The present review discusses some of the current experimental strategies, with a focus on applications in neurobiology...
  24. doi request reprint Chemical and pathway proteomics: powerful tools for oncology drug discovery and personalized health care
    Ulrich Kruse
    Deptartment of Discovery Technology, Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Mol Cell Proteomics 7:1887-901. 2008
    ..Moreover we highlight the emerging utility of pathway and chemical proteomics techniques for translational research in patient tissue...
  25. ncbi request reprint Mapping protein complexes using covalently linked antibodies and isobaric mass tags
    Antje Dittmann
    Cellzome GmbH, Meyerhofstrasse 1, 69117, Heidelberg, Germany
    Methods Mol Biol 1156:279-91. 2014
    ..Specifically enriched proteins are identified using shotgun mass spectrometry and isobaric mass tag-based relative quantification. ..
  26. ncbi request reprint Quantifying small molecule-induced changes in cellular protein expression and posttranslational modifications using isobaric mass tags
    Isabelle Becher
    Cellzome GmbH, Meyerhofstrasse 1, 69117, Heidelberg, Germany
    Methods Mol Biol 1156:431-43. 2014
    ....
  27. ncbi request reprint 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...
  28. doi request reprint Mass spectrometry-based chemoproteomic approaches
    Marcus Bantscheff
    Cellzome AG, Heidelberg, Germany
    Methods Mol Biol 803:3-13. 2012
    ..For this purpose, a large arsenal of approaches has emerged in recent years, many of which employing quantitative mass spectrometry. This review briefly summarizes major experiment types employed in current chemical proteomics research...
  29. pmc Chemoproteomics-Based Design of Potent LRRK2-Selective Lead Compounds That Attenuate Parkinson's Disease-Related Toxicity in Human Neurons
    Nigel Ramsden
    Cellzome AG, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    ACS Chem Biol 6:1021-8. 2011
    ..These precise chemical probes further validate this emerging therapeutic strategy. They will enable more detailed studies of LRRK2-dependent signaling and pathogenesis and accelerate drug discovery...
  30. doi request reprint Human Proteinpedia enables sharing of human protein data
    Suresh Mathivanan
    Nat Biotechnol 26:164-7. 2008
  31. ncbi request reprint Proteome analysis of diseased joints from mice suffering from collagen-induced arthritis
    Peter Lorenz
    Institute of Immunology, Medical Faculty, University of Rostock, Rostock, Germany
    Clin Chem Lab Med 41:1622-32. 2003
    ..This study provides us with the framework for more detailed approaches to understanding the complex disease arthritis that go beyond global proteomics...
  32. ncbi request reprint Mass spectrometric proteome analyses of synovial fluids and plasmas from patients suffering from rheumatoid arthritis and comparison to reactive arthritis or osteoarthritis
    Andrea Sinz
    Proteome Center Rostock, Medical Faculty, University of Rostock, Germany
    Electrophoresis 23:3445-56. 2002
    ....
  33. ncbi request reprint 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