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Robust and Accurate 2-Year Performance of a Quantitative Mass Spectrometry-Based Apolipoprotein Test in a Clinical Chemistry Laboratory.

Ruhaak LR, Smit NPM, Romijn FPHTM, Pieterse MM, van der Laarse A, van der Burgt YEM, Cobbaert CM.

Clin Chem. 2018 Apr;64(4):747-749. doi: 10.1373/clinchem.2017.285098. Epub 2018 Jan 29. No abstract available.


Serum Protein N-Glycosylation Changes with Rheumatoid Arthritis Disease Activity during and after Pregnancy.

Reiding KR, Vreeker GCM, Bondt A, Bladergroen MR, Hazes JMW, van der Burgt YEM, Wuhrer M, Dolhain RJEM.

Front Med (Lausanne). 2018 Jan 8;4:241. doi: 10.3389/fmed.2017.00241. eCollection 2017.


Structural Characterization of Biofunctionalized Gold Nanoparticles by Ultrahigh-Resolution Mass Spectrometry.

Nicolardi S, van der Burgt YEM, Codée JDC, Wuhrer M, Hokke CH, Chiodo F.

ACS Nano. 2017 Aug 22;11(8):8257-8264. doi: 10.1021/acsnano.7b03402. Epub 2017 Jul 12.


IgA N- and O-glycosylation profiling reveals no association with the pregnancy-related improvement in rheumatoid arthritis.

Bondt A, Nicolardi S, Jansen BC, Kuijper TM, Hazes JMW, van der Burgt YEM, Wuhrer M, Dolhain RJEM.

Arthritis Res Ther. 2017 Jul 5;19(1):160. doi: 10.1186/s13075-017-1367-0.


Prospective applications of ultrahigh resolution proteomics in clinical mass spectrometry.

Ruhaak LR, van der Burgt YE, Cobbaert CM.

Expert Rev Proteomics. 2016 Dec;13(12):1063-1071. Epub 2016 Nov 7. Review.


Longitudinal monitoring of immunoglobulin A glycosylation during pregnancy by simultaneous MALDI-FTICR-MS analysis of N- and O-glycopeptides.

Bondt A, Nicolardi S, Jansen BC, Stavenhagen K, Blank D, Kammeijer GS, Kozak RP, Fernandes DL, Hensbergen PJ, Hazes JM, van der Burgt YE, Dolhain RJ, Wuhrer M.

Sci Rep. 2016 Jun 15;6:27955. doi: 10.1038/srep27955.


Application of a Serum Protein Signature for Pancreatic Cancer to Separate Cases from Controls in a Pancreatic Surveillance Cohort.

Potjer TP, Mertens BJ, Nicolardi S, van der Burgt YE, Bonsing BA, Mesker WE, Tollenaar RA, Vasen HF.

Transl Oncol. 2016 Jun;9(3):242-7. doi: 10.1016/j.tranon.2016.03.003.


Typing Pseudomonas aeruginosa Isolates with Ultrahigh Resolution MALDI-FTICR Mass Spectrometry.

Fleurbaaij F, Kraakman ME, Claas EC, Knetsch CW, van Leeuwen HC, van der Burgt YE, Veldkamp KE, Vos MC, Goessens W, Mertens BJ, Kuijper EJ, Hensbergen PJ, Nicolardi S.

Anal Chem. 2016 Jun 7;88(11):5996-6003. doi: 10.1021/acs.analchem.6b01037. Epub 2016 May 10.


Differentiating samples and experimental protocols by direct comparison of tandem mass spectra.

van der Plas-Duivesteijn SJ, Wulff T, Klychnikov O, Ohana D, Dalebout H, van Veelen PA, de Keijzer J, Nessen MA, van der Burgt YE, Deelder AM, Palmblad M.

Rapid Commun Mass Spectrom. 2016 Mar 30;30(6):731-8. doi: 10.1002/rcm.7494.


Comparative mass spectrometric and immunoassay-based proteome analysis in serum of Duchenne muscular dystrophy patients.

Oonk S, Spitali P, Hiller M, Switzar L, Dalebout H, Calissano M, Lochmüller H, Aartsma-Rus A, 't Hoen PA, van der Burgt YE.

Proteomics Clin Appl. 2016 Mar;10(3):290-9. doi: 10.1002/prca.201500044. Epub 2016 Jan 8.


Automated Multiplex LC-MS/MS Assay for Quantifying Serum Apolipoproteins A-I, B, C-I, C-II, C-III, and E with Qualitative Apolipoprotein E Phenotyping.

van den Broek I, Romijn FP, Nouta J, van der Laarse A, Drijfhout JW, Smit NP, van der Burgt YE, Cobbaert CM.

Clin Chem. 2016 Jan;62(1):188-97. doi: 10.1373/clinchem.2015.246702. Epub 2015 Nov 19.


Developments in FTICR-MS and Its Potential for Body Fluid Signatures.

Nicolardi S, Bogdanov B, Deelder AM, Palmblad M, van der Burgt YE.

Int J Mol Sci. 2015 Nov 13;16(11):27133-44. doi: 10.3390/ijms161126012. Review.


In-Depth Characterization of Protein Disulfide Bonds by Online Liquid Chromatography-Electrochemistry-Mass Spectrometry.

Switzar L, Nicolardi S, Rutten JW, Oberstein SA, Aartsma-Rus A, van der Burgt YE.

J Am Soc Mass Spectrom. 2016 Jan;27(1):50-8. doi: 10.1007/s13361-015-1258-z. Epub 2015 Sep 14.


Automation of High-Throughput Mass Spectrometry-Based Plasma N-Glycome Analysis with Linkage-Specific Sialic Acid Esterification.

Bladergroen MR, Reiding KR, Hipgrave Ederveen AL, Vreeker GC, Clerc F, Holst S, Bondt A, Wuhrer M, van der Burgt YE.

J Proteome Res. 2015 Sep 4;14(9):4080-6. doi: 10.1021/acs.jproteome.5b00538. Epub 2015 Aug 11.


Structure characterization of unexpected covalent O-sulfonation and ion-pairing on an extremely hydrophilic peptide with CE-MS and FT-ICR-MS.

Pattky M, Nicolardi S, Santiago-Schübel B, Sydes D, van der Burgt YE, Klein AN, Jiang N, Mohrlüder J, Hänel K, Kutzsche J, Funke SA, Willbold D, Willbold S, Huhn C.

Anal Bioanal Chem. 2015 Sep;407(22):6637-55. doi: 10.1007/s00216-015-8826-8. Epub 2015 Jun 28.


Quantification of serum apolipoproteins A-I and B-100 in clinical samples using an automated SISCAPA-MALDI-TOF-MS workflow.

van den Broek I, Nouta J, Razavi M, Yip R, Bladergroen MR, Romijn FP, Smit NP, Drews O, Paape R, Suckau D, Deelder AM, van der Burgt YE, Pearson TW, Anderson NL, Cobbaert CM.

Methods. 2015 Jun 15;81:74-85. doi: 10.1016/j.ymeth.2015.03.001. Epub 2015 Mar 9.


Top-down MALDI-in-source decay-FTICR mass spectrometry of isotopically resolved proteins.

Nicolardi S, Switzar L, Deelder AM, Palmblad M, van der Burgt YE.

Anal Chem. 2015 Mar 17;87(6):3429-37. doi: 10.1021/ac504708y. Epub 2015 Mar 5.


Solid-phase extraction strategies to surmount body fluid sample complexity in high-throughput mass spectrometry-based proteomics.

Bladergroen MR, van der Burgt YE.

J Anal Methods Chem. 2015;2015:250131. doi: 10.1155/2015/250131. Epub 2015 Jan 27. Review.


Quantifying protein measurands by peptide measurements: where do errors arise?

van den Broek I, Romijn FP, Smit NP, van der Laarse A, Drijfhout JW, van der Burgt YE, Cobbaert CM.

J Proteome Res. 2015 Feb 6;14(2):928-42. doi: 10.1021/pr5011179. Epub 2015 Jan 6.


Case-controlled identification of colorectal cancer based on proteomic profiles and the potential for screening.

Huijbers A, Mesker WE, Mertens BJ, Bladergroen MR, Deelder AM, van der Burgt YE, Tollenaar RA.

Colorectal Dis. 2014 Nov;16(11):907-13. doi: 10.1111/codi.12782.


Serum peptide signatures for pancreatic cancer based on mass spectrometry: a comparison to CA19-9 levels and routine imaging techniques.

Velstra B, Vonk MA, Bonsing BA, Mertens BJ, Nicolardi S, Huijbers A, Vasen H, Deelder AM, Mesker WE, van der Burgt YE, Tollenaar RA.

J Cancer Res Clin Oncol. 2015 Mar;141(3):531-41. doi: 10.1007/s00432-014-1812-2. Epub 2014 Sep 21.


Urinary signatures of Renal Cell Carcinoma investigated by peptidomic approaches.

Chinello C, Cazzaniga M, De Sio G, Smith AJ, Gianazza E, Grasso A, Rocco F, Signorini S, Grasso M, Bosari S, Zoppis I, Dakna M, van der Burgt YE, Mauri G, Magni F.

PLoS One. 2014 Sep 9;9(9):e106684. doi: 10.1371/journal.pone.0106684. eCollection 2014.


Metrological traceability in mass spectrometry-based targeted protein quantitation: a proof-of-principle study for serum apolipoproteins A-I and B100.

Smit NP, Romijn FP, van den Broek I, Drijfhout JW, Haex M, van der Laarse A, van der Burgt YE, Cobbaert CM.

J Proteomics. 2014 Sep 23;109:143-61. doi: 10.1016/j.jprot.2014.06.015. Epub 2014 Jun 25.


Structural analysis of an intact monoclonal antibody by online electrochemical reduction of disulfide bonds and Fourier transform ion cyclotron resonance mass spectrometry.

Nicolardi S, Deelder AM, Palmblad M, van der Burgt YE.

Anal Chem. 2014 Jun 3;86(11):5376-82. doi: 10.1021/ac500383c. Epub 2014 May 12.


Fibronectin is a serum biomarker for Duchenne muscular dystrophy.

Cynthia Martin F, Hiller M, Spitali P, Oonk S, Dalebout H, Palmblad M, Chaouch A, Guglieri M, Straub V, Lochmüller H, Niks EH, Verschuuren JJ, Aartsma-Rus A, Deelder AM, van der Burgt YE, 't Hoen PA.

Proteomics Clin Appl. 2014 Apr;8(3-4):269-78. doi: 10.1002/prca.201300072. Epub 2014 Mar 11.


Evaluation of interspecimen trypsin digestion efficiency prior to multiple reaction monitoring-based absolute protein quantification with native protein calibrators.

van den Broek I, Smit NP, Romijn FP, van der Laarse A, Deelder AM, van der Burgt YE, Cobbaert CM.

J Proteome Res. 2013 Dec 6;12(12):5760-74. doi: 10.1021/pr400763d. Epub 2013 Nov 13.


On-line electrochemical reduction of disulfide bonds: improved FTICR-CID and -ETD coverage of oxytocin and hepcidin.

Nicolardi S, Giera M, Kooijman P, Kraj A, Chervet JP, Deelder AM, van der Burgt YE.

J Am Soc Mass Spectrom. 2013 Dec;24(12):1980-7. doi: 10.1007/s13361-013-0725-7. Epub 2013 Sep 10.


Detection and structural elucidation of esterified oxylipids in human synovial fluid by electrospray ionization-fourier transform ion-cyclotron mass spectrometry and liquid chromatography-ion trap-MS(3): detection of esterified hydroxylated docosapentaenoic acid containing phospholipids.

Jónasdóttir HS, Nicolardi S, Jonker W, Derks R, Palmblad M, Ioan-Facsinay A, Toes R, van der Burgt YE, Deelder AM, Mayboroda OA, Giera M.

Anal Chem. 2013 Jun 18;85(12):6003-10. doi: 10.1021/ac400826z. Epub 2013 May 30.


Identification of new apolipoprotein-CIII glycoforms with ultrahigh resolution MALDI-FTICR mass spectrometry of human sera.

Nicolardi S, van der Burgt YE, Dragan I, Hensbergen PJ, Deelder AM.

J Proteome Res. 2013 May 3;12(5):2260-8. doi: 10.1021/pr400136p. Epub 2013 Apr 5.


Detection of pancreatic cancer using serum protein profiling.

Velstra B, Bonsing BA, Mertens BJ, van der Burgt YE, Huijbers A, Vasen H, Mesker WE, Deelder AM, Tollenaar RA.

HPB (Oxford). 2013 Aug;15(8):602-10. doi: 10.1111/hpb.12017. Epub 2012 Nov 30.


Mapping O-glycosylation of apolipoprotein C-III in MALDI-FT-ICR protein profiles.

Nicolardi S, van der Burgt YE, Wuhrer M, Deelder AM.

Proteomics. 2013 Mar;13(6):992-1001. doi: 10.1002/pmic.201200293. Epub 2013 Feb 19.


Alterations of the serum peptidome in renal cell carcinoma discriminating benign and malignant kidney tumors.

Gianazza E, Chinello C, Mainini V, Cazzaniga M, Squeo V, Albo G, Signorini S, Di Pierro SS, Ferrero S, Nicolardi S, van der Burgt YE, Deelder AM, Magni F.

J Proteomics. 2012 Dec 5;76 Spec No.:125-40. doi: 10.1016/j.jprot.2012.07.032. Epub 2012 Jul 31.


Standardized and automated solid-phase extraction procedures for high-throughput proteomics of body fluids.

Bladergroen MR, Derks RJ, Nicolardi S, de Visser B, van Berloo S, van der Burgt YE, Deelder AM.

J Proteomics. 2012 Dec 21;77:144-53. doi: 10.1016/j.jprot.2012.07.023. Epub 2012 Jul 26.


Temperature-dependent instability of the cTnI subunit in NIST SRM2921 characterized by tryptic peptide mapping.

van der Burgt YE, Cobbaert CM, Dalebout H, Smit N, Deelder AM.

J Chromatogr B Analyt Technol Biomed Life Sci. 2012 Aug 1;902:147-50. doi: 10.1016/j.jchromb.2012.06.020. Epub 2012 Jun 26.


Improved classification of breast cancer peptide and protein profiles by combining two serum workup procedures.

Velstra B, van der Burgt YE, Mertens BJ, Mesker WE, Deelder AM, Tollenaar RA.

J Cancer Res Clin Oncol. 2012 Dec;138(12):1983-92. doi: 10.1007/s00432-012-1273-4. Epub 2012 Jul 5.


Identification of human serum peptides in fourier transform ion cyclotron resonance precision profiles.

Nicolardi S, Dalebout H, Bladergroen MR, Mesker WE, Tollenaar RA, Deelder AM, van der Burgt YE.

Int J Proteomics. 2012;2012:804036. doi: 10.1155/2012/804036. Epub 2012 May 22.


Top-down FTICR MS for the identification of fluorescent labeling efficiency and specificity of the Cu-protein azurin.

Nicolardi S, Andreoni A, Tabares LC, van der Burgt YE, Canters GW, Deelder AM, Hensbergen PJ.

Anal Chem. 2012 Mar 6;84(5):2512-20. doi: 10.1021/ac203370f. Epub 2012 Feb 23.


Precision profiling and identification of human serum peptides using Fourier transform ion cyclotron resonance mass spectrometry.

Nicolardi S, Palmblad M, Hensbergen PJ, Tollenaar RA, Deelder AM, van der Burgt YE.

Rapid Commun Mass Spectrom. 2011 Dec 15;25(23):3457-63. doi: 10.1002/rcm.5246.


Mass spectrometric glycan rearrangements.

Wuhrer M, Deelder AM, van der Burgt YE.

Mass Spectrom Rev. 2011 Jul-Aug;30(4):664-80. doi: 10.1002/mas.20337. Epub 2011 May 10. Review.


Mass spectrometry analysis of hepcidin peptides in experimental mouse models.

Tjalsma H, Laarakkers CM, van Swelm RP, Theurl M, Theurl I, Kemna EH, van der Burgt YE, Venselaar H, Dutilh BE, Russel FG, Weiss G, Masereeuw R, Fleming RE, Swinkels DW.

PLoS One. 2011 Mar 8;6(3):e16762. doi: 10.1371/journal.pone.0016762.


Proteomic serum biomarkers and their potential application in cancer screening programs.

Huijbers A, Velstra B, Dekker TJ, Mesker WE, van der Burgt YE, Mertens BJ, Deelder AM, Tollenaar RA.

Int J Mol Sci. 2010 Oct 26;11(11):4175-93. doi: 10.3390/ijms11114175. Review.


"Lossless" compression of high resolution mass spectra of small molecules.

Blanckenburg B, van der Burgt YE, Deelder AM, Palmblad M.

Metabolomics. 2010 Sep;6(3):335-340. Epub 2010 Mar 7.


Biomarkers discovery by peptide and protein profiling in biological fluids based on functionalized magnetic beads purification and mass spectrometry.

Magni F, Van Der Burgt YE, Chinello C, Mainini V, Gianazza E, Squeo V, Deelder AM, Kienle MG.

Blood Transfus. 2010 Jun;8 Suppl 3:s92-7. doi: 10.2450/2010.015S. Review. No abstract available.


Quality control based on isotopic distributions for high-throughput MALDI-TOF and MALDI-FTICR serum peptide profiling.

Nicolardi S, Palmblad M, Dalebout H, Bladergroen M, Tollenaar RA, Deelder AM, van der Burgt YE.

J Am Soc Mass Spectrom. 2010 Sep;21(9):1515-25. doi: 10.1016/j.jasms.2010.05.004. Epub 2010 May 12.


A novel mass spectrometry cluster for high-throughput quantitative proteomics.

Palmblad M, van der Burgt YE, Mostovenko E, Dalebout H, Deelder AM.

J Am Soc Mass Spectrom. 2010 Jun;21(6):1002-11. doi: 10.1016/j.jasms.2010.02.001. Epub 2010 Feb 8.


On-the-fly targeted selection of labeled peptides in liquid chromatography/mass spectrometry based quantitative proteomics.

Barbu IM, Smith DF, van Breukelen B, van der Burgt YE, Duursma MC, Heck AJ, Heeren RM, Krijgsveld J.

Rapid Commun Mass Spectrom. 2010 Jan;24(2):239-41. doi: 10.1002/rcm.4385. No abstract available.


Improving mass measurement accuracy in mass spectrometry based proteomics by combining open source tools for chromatographic alignment and internal calibration.

Palmblad M, van der Burgt YE, Dalebout H, Derks RJ, Schoenmaker B, Deelder AM.

J Proteomics. 2009 May 2;72(4):722-4. doi: 10.1016/j.jprot.2008.12.011. Epub 2009 Jan 8.


Electron capture dissociation of peptide hormone changes upon opening of the tocin ring and complexation with transition metal cations.

van der Burgt YE, Palmblad M, Dalebout H, Heeren RM, Deelder AM.

Rapid Commun Mass Spectrom. 2009 Jan;23(1):31-8. doi: 10.1002/rcm.3849.


A novel workflow control system for Fourier transform ion cyclotron resonance mass spectrometry allows for unique on-the-fly data-dependent decisions.

Taban IM, van der Burgt YE, Duursma M, Takáts Z, Seynen M, Konijnenburg M, Vijftigschild A, Attema I, Heeren RM.

Rapid Commun Mass Spectrom. 2008 Apr;22(8):1245-56. doi: 10.1002/rcm.3440.


Disulfide bond cleavages observed in SORI-CID of three nonapeptides complexed with divalent transition-metal cations.

Mihalca R, van der Burgt YE, Heck AJ, Heeren RM.

J Mass Spectrom. 2007 Apr;42(4):450-8.


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