Lennard J M Dekker

Summary

Affiliation: Erasmus MC
Country: The Netherlands

Publications

  1. doi request reprint Multiple sclerosis-related proteins identified in cerebrospinal fluid by advanced mass spectrometry
    Marcel P Stoop
    Laboratories of Neuro Oncology Clinical and Cancer Proteomics, Department of Neurology, Erasmus University Medical Centre, Rotterdam, The Netherlands
    Proteomics 8:1576-85. 2008
  2. pmc Label-free peptide profiling of Orbitrap™ full mass spectra
    Mark K Titulaer
    Laboratory of Neuro Oncology and Clinical and Cancer Proteomics, Department of Neurology, Erasmus University Medical Center, Dr, Molewaterplein 50, P, O, Box 2040, 3000 CA Rotterdam, The Netherlands
    BMC Res Notes 4:21. 2011
  3. pmc A database application for pre-processing, storage and comparison of mass spectra derived from patients and controls
    Mark K Titulaer
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    BMC Bioinformatics 7:403. 2006
  4. doi request reprint A mass spectrometry based imaging method developed for the intracellular detection of HIV protease inhibitors
    Lennard J M Dekker
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    Rapid Commun Mass Spectrom 23:1183-8. 2009
  5. ncbi request reprint Peptide profiling of cerebrospinal fluid by mass spectrometry
    Lennard J Dekker
    Erasmus University Medical Center, Department of Neurology, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Expert Rev Proteomics 3:297-309. 2006
  6. pmc Ultrafast and high-throughput mass spectrometric assay for therapeutic drug monitoring of antiretroviral drugs in pediatric HIV-1 infection applying dried blood spots
    Roland J W Meesters
    Department of Neurology, Laboratory of Neuro Oncology and Clinical and Cancer Proteomics, University Medical Center Rotterdam Erasmus MC, Dr Molewaterplein 50, Room Ee 1981, 3015 GE Rotterdam, The Netherlands
    Anal Bioanal Chem 398:319-28. 2010
  7. doi request reprint Serum levels of pregnancy zone protein are elevated in presymptomatic Alzheimer's disease
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteome Res 10:4902-10. 2011
  8. ncbi request reprint Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches
    Ning Qing Liu
    Department of Medical Oncology, Erasmus MC Cancer Institute and Department of Neurology, Erasmus University Medical Center, Dr Molewaterplein 50, Be 401, P O Box 2040, 3000 CA Rotterdam, The Netherlands
    J Proteome Res 12:4627-41. 2013
  9. doi request reprint Serum proteomics in amnestic mild cognitive impairment
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    Proteomics 13:2526-33. 2013
  10. pmc Peptides from the Variable Region of Specific Antibodies Are Shared among Lung Cancer Patients
    Dominique de Costa
    Department of Pulmonology, Erasmus Medical Center, Rotterdam, The Netherlands
    PLoS ONE 9:e96029. 2014

Collaborators

  • Theo M Luider
  • Ning Qing Liu
  • Arzu Umar
  • John A Foekens
  • Albert Hofman
  • Niels D Prins
  • M Arfan Ikram
  • Mark K Titulaer
  • Roland J W Meesters
  • Rob J van Klaveren
  • Rainer Bischoff
  • J M Kros
  • John W M Martens
  • Peter A E Sillevis Smitt
  • Linda Ijsselstijn
  • Christoph Stingl
  • Peter C Burgers
  • Dominique de Costa
  • Martijn M VanDuijn
  • Ingrid Broodman
  • Wim Calame
  • Peter J Koudstaal
  • Marcel P Stoop
  • Giovanny Rodríguez-Blanco
  • Mirelle E E Bröker
  • René B H Braakman
  • Henk C Hoogsteden
  • Monique M B Breteler
  • Els Bon
  • Jeroen J A van Kampen
  • Halima Charif
  • Dana A N Mustafa
  • Rene M Vernhout
  • Mark F Wildhagen
  • Jan J N Ijzermans
  • Ellen A M Schenk-Braat
  • Guido Jenster
  • Chris H Bangma
  • Harry J de Koning
  • Cornelis Verhoef
  • Henk P Roest
  • Zarina S Lalmahomed
  • Janne M Papma
  • Nick A van Huizen
  • Jan N M Ijzermans
  • Jan Lindemans
  • Madeleine M A Tilanus-Linthorst
  • Marcel M van der Weiden
  • Albert D M E Osterhaus
  • Eric A P Steegers
  • Ronald De Groot
  • Ineke E van der Ende
  • David M Burger
  • Nico G Hartwig
  • Nicolette Ursem
  • Mariska L Reedijk
  • Rob A Gruters
  • L Zeneyedpour
  • Regine Steegers
  • Rogier Q Hintzen

Detail Information

Publications28

  1. doi request reprint Multiple sclerosis-related proteins identified in cerebrospinal fluid by advanced mass spectrometry
    Marcel P Stoop
    Laboratories of Neuro Oncology Clinical and Cancer Proteomics, Department of Neurology, Erasmus University Medical Centre, Rotterdam, The Netherlands
    Proteomics 8:1576-85. 2008
    ..CSF chromogranin A levels were confirmed to be significantly elevated in the MScl group using an ELISA...
  2. pmc Label-free peptide profiling of Orbitrap™ full mass spectra
    Mark K Titulaer
    Laboratory of Neuro Oncology and Clinical and Cancer Proteomics, Department of Neurology, Erasmus University Medical Center, Dr, Molewaterplein 50, P, O, Box 2040, 3000 CA Rotterdam, The Netherlands
    BMC Res Notes 4:21. 2011
    ..abstract:..
  3. pmc A database application for pre-processing, storage and comparison of mass spectra derived from patients and controls
    Mark K Titulaer
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    BMC Bioinformatics 7:403. 2006
    ....
  4. doi request reprint A mass spectrometry based imaging method developed for the intracellular detection of HIV protease inhibitors
    Lennard J M Dekker
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    Rapid Commun Mass Spectrom 23:1183-8. 2009
    ....
  5. ncbi request reprint Peptide profiling of cerebrospinal fluid by mass spectrometry
    Lennard J Dekker
    Erasmus University Medical Center, Department of Neurology, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Expert Rev Proteomics 3:297-309. 2006
    ..This review will discuss the current status of profiling cerebrospinal fluid using mass spectrometry-based techniques, and new developments in this area...
  6. pmc Ultrafast and high-throughput mass spectrometric assay for therapeutic drug monitoring of antiretroviral drugs in pediatric HIV-1 infection applying dried blood spots
    Roland J W Meesters
    Department of Neurology, Laboratory of Neuro Oncology and Clinical and Cancer Proteomics, University Medical Center Rotterdam Erasmus MC, Dr Molewaterplein 50, Room Ee 1981, 3015 GE Rotterdam, The Netherlands
    Anal Bioanal Chem 398:319-28. 2010
    ..DBS is perfectly suited for TDM of HIV-1-infected children; but nevertheless, DBS can also easily be applied for TDM of patients in areas with limited or no laboratory facilities...
  7. doi request reprint Serum levels of pregnancy zone protein are elevated in presymptomatic Alzheimer's disease
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteome Res 10:4902-10. 2011
    ..Immunohistochemical validation of the findings on brain tissue sections showed strong PZP expression in senile plaques and in microglial and glial cells in AD with only low expression in some scattered glial cells in controls...
  8. ncbi request reprint Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches
    Ning Qing Liu
    Department of Medical Oncology, Erasmus MC Cancer Institute and Department of Neurology, Erasmus University Medical Center, Dr Molewaterplein 50, Be 401, P O Box 2040, 3000 CA Rotterdam, The Netherlands
    J Proteome Res 12:4627-41. 2013
    ..The SILAC-based SRM method can be used for the development of clinically relevant protein assays in tumor biopsies. ..
  9. doi request reprint Serum proteomics in amnestic mild cognitive impairment
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    Proteomics 13:2526-33. 2013
    ..A small external validation set yielded 77% sensitivity and 75% specificity...
  10. pmc Peptides from the Variable Region of Specific Antibodies Are Shared among Lung Cancer Patients
    Dominique de Costa
    Department of Pulmonology, Erasmus Medical Center, Rotterdam, The Netherlands
    PLoS ONE 9:e96029. 2014
    ..With our Fab-purification combined Orbitrap-mass-spectrometry approach, we found peptides from the variable-parts of antibodies which are shared among lung cancer patients. ..
  11. doi request reprint Mass spectrometry analyses of κ and λ fractions result in increased number of complementarity-determining region identifications
    Ingrid Broodman
    Department of Clinical Chemistry, Erasmus Medical Center, Rotterdam, The Netherlands
    Proteomics 12:183-91. 2012
    ..The number of CDRs and κ:λ ratio was statistically similar in both cases and controls. Molecular dissection of IgG identifies significantly more CDRs, which increases the likelihood of finding lung cancer-related CDR sequences...
  12. pmc Ultra-fast analysis of plasma and intracellular levels of HIV protease inhibitors in children: a clinical application of MALDI mass spectrometry
    Jeroen J A van Kampen
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    PLoS ONE 5:e11409. 2010
    ....
  13. pmc An antibody-based biomarker discovery method by mass spectrometry sequencing of complementarity determining regions
    Lennard J M Dekker
    Department of Neurology, Lab Neuro Oncology, Erasmus University Medical Center, Dr Molewaterplein 50, 3015 GE Rotterdam, The Netherlands
    Anal Bioanal Chem 399:1081-91. 2011
    ..In conclusion, specific CDR peptides could be detected and sequenced at relatively low levels (attomole-femtomole range) which should allow the detection of clinically relevant CDR peptides in patient samples...
  14. ncbi request reprint Serum levels of arachidonic acid metabolites change during prostate cancer progression
    Giovanny Rodríguez-Blanco
    Department of Neurology, Erasmus Medical Centre, Rotterdam, The Netherlands
    Prostate 74:618-27. 2014
    ..In this study we aimed to assess the changes in concentrations of hydroxyeicosatetraenoic acids (HETEs) in serum samples from patients diagnosed with PCa compared to controls...
  15. pmc Immune responses are characterized by specific shared immunoglobulin peptides that can be detected by proteomic techniques
    Martijn M VanDuijn
    Department of Neurology, Erasmus MC, Rotterdam 3000 CA, The Netherlands
    J Biol Chem 285:29247-53. 2010
    ..This finding implies that immunoglobulin peptides could indeed be a powerful and easily accessible class of biomarkers...
  16. doi request reprint Comparative study of targeted and label-free mass spectrometry methods for protein quantification
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteome Res 12:2005-11. 2013
    ..Furthermore, the ongoing development in MS techniques increases the possibilities of qual/quant in protein quantification. ..
  17. pmc Collagen peptides in urine: a new promising biomarker for the detection of colorectal liver metastases
    Mirelle E E Bröker
    Department of Surgery, Division of Transplantation and Hepatobiliary Surgery, Erasmus University Medical Center, Rotterdam, The Netherlands
    PLoS ONE 8:e70918. 2013
    ..In this study, we will focus on the identification and validation of urine NOPs to discriminate patients with CRLM from healthy controls...
  18. doi request reprint Serum clusterin levels are not increased in presymptomatic Alzheimer's disease
    Linda Ijsselstijn
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteome Res 10:2006-10. 2011
    ..Results of the assay showed no significant difference in clusterin levels between presymptomatic AD and controls (p-value 0.54). In conclusion, serum clusterin is not an early, presymptomatic biomarker for AD...
  19. ncbi request reprint Use of Universal Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC)-Based Selected Reaction Monitoring (SRM) Approach for Verification of Breast Cancer-Related Protein Markers
    Ning Qing Liu
    Department of Medical Oncology, Laboratory of Breast Cancer Genomics and Proteomics, Erasmus University Medical Center, Erasmus MC Cancer Institute, Wytemaweg 80, Be 401, 2040, 3000, CA, Rotterdam, The Netherlands
    Methods Mol Biol 1156:307-22. 2014
    ..Here we describe a hands-on protocol of using this SILAC-SRM method for verification of breast cancer-related markers, which can also be used for verification of protein markers in other types of solid tumor tissues. ..
  20. doi request reprint Optimized nLC-MS workflow for laser capture microdissected breast cancer tissue
    René B H Braakman
    Department of Medical Oncology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteomics 75:2844-54. 2012
    ..This article is part of a Special Issue entitled: Proteomics: The clinical link...
  21. doi request reprint Differential expression of protease activity in serum samples of prostate carcinoma patients with metastases
    Lennard J M Dekker
    Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
    Proteomics 10:2348-58. 2010
    ..Importantly, the observed prostate carcinoma-related inhibition of the proteolysis was reproduced ex vivo using synthetic peptides...
  22. doi request reprint Sequencing and quantifying IgG fragments and antigen-binding regions by mass spectrometry
    Dominique de Costa
    Department of Pulmonology, Erasmus Medical Center, Rotterdam, The Netherlands
    J Proteome Res 9:2937-45. 2010
    ..From these results, we conclude that the identification of a CDR signature as biomarker for autoimmune diseases and cancer without prior knowledge of the antigen is feasible...
  23. doi request reprint Proteomic analyses of the developing chicken cardiovascular system
    Els Bon
    Laboratories of Neuro Oncology and Clinical and Cancer Proteomics, Department of Neurology, Erasmus MC, The Netherlands
    J Proteome Res 9:268-74. 2010
    ..We showed that myosin 6 is highly regulated in a stage and heart tissue specific manner. In conclusion, this method can be used to study changes in protein levels of chicken heart tissue in a spatiotemporal manner...
  24. ncbi request reprint MALDI-TOF mass spectrometry analysis of cerebrospinal fluid tryptic peptide profiles to diagnose leptomeningeal metastases in patients with breast cancer
    Lennard J Dekker
    Laboratory of Neuro Oncology, Department of Neurology, Dr Molewaterplein 40, 3015 GD, Erasmus MC, Rotterdam, The Netherlands
    Mol Cell Proteomics 4:1341-9. 2005
    ..The same method can be used to develop diagnostic assays for other neurological disorders...
  25. ncbi request reprint FTMS and TOF/TOF mass spectrometry in concert: identifying peptides with high reliability using matrix prespotted MALDI target plates
    Lennard J Dekker
    Laboratory for Neuro Oncology, Department of Neurology, Room AE312, Erasmus Medical Center, P O Box 1738, 3000DR Rotterdam, The Netherlands
    J Chromatogr B Analyt Technol Biomed Life Sci 847:62-4. 2007
    ..By this procedure accurate FTMS mass measurements and TOF/TOF data are obtained from the same spot. We have found that this combination of techniques leads to more reliable identification of peptides...
  26. ncbi request reprint Depletion of high-abundance proteins from serum by immunoaffinity chromatography: a MALDI-FT-MS study
    Lennard J Dekker
    Department of Neurology, ErasmusMC, Rotterdam, The Netherlands
    J Chromatogr B Analyt Technol Biomed Life Sci 847:65-9. 2007
    ..From this study we conclude that the depletion of the 250 serum samples was complete and reproducible over a period of 6 weeks...
  27. ncbi request reprint Identification of glioma neovascularization-related proteins by using MALDI-FTMS and nano-LC fractionation to microdissected tumor vessels
    Dana A N Mustafa
    Department of Pathology, Erasmus Medical Center, Dr Molewaterplein 50, 3015 GD Rotterdam, The Netherlands
    Mol Cell Proteomics 6:1147-57. 2007
    ..This work proves that gel-free mass spectrometric techniques can be used on relatively small numbers of cells generated by microdissection procedures to successfully identify differentially expressed proteins...
  28. ncbi request reprint A new method to analyze matrix-assisted laser desorption/ionization time-of-flight peptide profiling mass spectra
    Lennard J Dekker
    Department of Neurology, Erasmus MC, Rotterdam, The Netherlands
    Rapid Commun Mass Spectrom 19:865-70. 2005
    ..This approach will aid the analysis of large numbers of mass spectra of patient samples in a reproducible way for the detection and validation of candidate biomarkers...