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Items: 1 to 50 of 62

1.

Differential tissue expression of extracellular vesicle-derived proteins in prostate cancer.

Duijvesz D, Rodriguez-Blanco G, Hoogland AM, Verhoef EI, Dekker LJ, Roobol MJ, van Leenders GJLH, Luider TM, Jenster G.

Prostate. 2019 Jun;79(9):1032-1042. doi: 10.1002/pros.23813. Epub 2019 Apr 24.

2.

Identification of 4-Hydroxyproline at the Xaa Position in Collagen by Mass Spectrometry.

van Huizen NA, Burgers PC, Saintmont F, Brocorens P, Gerbaux P, Stingl C, Dekker LJM, IJzermans JNM, Luider TM.

J Proteome Res. 2019 May 3;18(5):2045-2051. doi: 10.1021/acs.jproteome.8b00930. Epub 2019 Apr 12.

PMID:
30945869
3.

Neoantigens in Chronic Obstructive Pulmonary Disease and Lung Cancer: A Point of View.

Zeneyedpour L, Dekker LJM, van Sten-van T Hoff JJM, Burgers PC, Ten Hacken NHT, Luider TM.

Proteomics Clin Appl. 2019 Mar;13(2):e1800093. doi: 10.1002/prca.201800093. Epub 2019 Feb 11. Review.

4.

Tissue proteomics outlines AGR2 AND LOX5 as markers for biochemical recurrence of prostate cancer.

Rodríguez-Blanco G, Zeneyedpour L, Duijvesz D, Hoogland AM, Verhoef EI, Kweldam CF, Burgers PC, Smitt PS, Bangma CH, Jenster G, van Leenders GJLH, Dekker LJM, Luider TM.

Oncotarget. 2018 Nov 23;9(92):36444-36456. doi: 10.18632/oncotarget.26342. eCollection 2018 Nov 23.

5.

Up-regulation of collagen proteins in colorectal liver metastasis compared with normal liver tissue.

van Huizen NA, Coebergh van den Braak RRJ, Doukas M, Dekker LJM, IJzermans JNM, Luider TM.

J Biol Chem. 2019 Jan 4;294(1):281-289. doi: 10.1074/jbc.RA118.005087. Epub 2018 Nov 8.

PMID:
30409905
6.

Proteomic alterations in early stage cervical cancer.

Güzel C, Govorukhina NI, Wisman GBA, Stingl C, Dekker LJM, Klip HG, Hollema H, Guryev V, Horvatovich PL, van der Zee AGJ, Bischoff R, Luider TM.

Oncotarget. 2018 Apr 6;9(26):18128-18147. doi: 10.18632/oncotarget.24773. eCollection 2018 Apr 6.

7.

Determination of Site-Specific Phosphorylation Ratios in Proteins with Targeted Mass Spectrometry.

Dekker LJM, Zeneyedpour L, Snoeijers S, Joore J, Leenstra S, Luider TM.

J Proteome Res. 2018 Apr 6;17(4):1654-1663. doi: 10.1021/acs.jproteome.7b00911. Epub 2018 Mar 9.

PMID:
29457462
8.

De Novo Sequencing of Peptides from High-Resolution Bottom-Up Tandem Mass Spectra using Top-Down Intended Methods.

Vyatkina K, Dekker LJM, Wu S, VanDuijn MM, Liu X, Tolić N, Luider TM, Paša-Tolić L.

Proteomics. 2017 Dec;17(23-24). doi: 10.1002/pmic.201600321.

PMID:
29110399
9.

Immune Repertoire after Immunization As Seen by Next-Generation Sequencing and Proteomics.

VanDuijn MM, Dekker LJ, van IJcken WFJ, Sillevis Smitt PAE, Luider TM.

Front Immunol. 2017 Oct 16;8:1286. doi: 10.3389/fimmu.2017.01286. eCollection 2017.

10.

Comparison of Targeted Mass Spectrometry Techniques with an Immunoassay: A Case Study for HSP90α.

Güzel C, Govorukhina NI, Stingl C, Dekker LJM, Boichenko A, van der Zee AGJ, Bischoff RPH, Luider TM.

Proteomics Clin Appl. 2018 Jan;12(1). doi: 10.1002/prca.201700107. Epub 2017 Oct 30.

PMID:
28975736
11.

TP53 mutated glioblastoma stem-like cell cultures are sensitive to dual mTORC1/2 inhibition while resistance in TP53 wild type cultures can be overcome by combined inhibition of mTORC1/2 and Bcl-2.

Venkatesan S, Hoogstraat M, Caljouw E, Pierson T, Spoor JK, Zeneyedpour L, Dubbink HJ, Dekker LJ, van der Kaaij M, Kloezeman J, Berghauser Pont LM, Besselink NJ, Luider TM, Joore J, Martens JW, Lamfers ML, Sleijfer S, Leenstra S.

Oncotarget. 2016 Sep 6;7(36):58435-58444. doi: 10.18632/oncotarget.11205.

12.

Evaluation of different pretreatment protocols to detect accurately clinical carbapenemase-producing Enterobacteriaceae by MALDI-TOF.

Monteferrante CG, Sultan S, Ten Kate MT, Dekker LJ, Sparbier K, Peer M, Kostzrewa M, Luider TM, Goessens WH, Burgers PC.

J Antimicrob Chemother. 2016 Oct;71(10):2856-67. doi: 10.1093/jac/dkw208. Epub 2016 Jun 10.

PMID:
27287232
13.

Top-down analysis of protein samples by de novo sequencing techniques.

Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Luider TM, Paša-Tolić L, Pevzner PA.

Bioinformatics. 2016 Sep 15;32(18):2753-9. doi: 10.1093/bioinformatics/btw307. Epub 2016 May 14.

14.

Hydroxylated collagen peptide in urine as biomarker for detecting colorectal liver metastases.

Lalmahomed ZS, Bröker ME, van Huizen NA, Coebergh van den Braak RR, Dekker LJ, Rizopoulos D, Verhoef C, Steyerberg EW, Luider TM, IJzermans JN.

Am J Cancer Res. 2016 Jan 15;6(2):321-30. eCollection 2016.

15.

Detection of amino acid substitutions in the GyrA protein of fluoroquinolone-resistant typhoidal Salmonella isolates using high-resolution mass spectrometry.

Hassing RJ, Goessens WH, Zeneyedpour L, Sultan S, van Kampen JJ, Verbon A, van Genderen PJ, Hays JP, Luider TM, Dekker LJ.

Int J Antimicrob Agents. 2016 May;47(5):351-6. doi: 10.1016/j.ijantimicag.2016.01.018. Epub 2016 Mar 15.

PMID:
27132191
16.

Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera.

De Marchi T, Kuhn E, Dekker LJ, Stingl C, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Luider TM, Foekens JA, Martens JW, Carr SA, Umar A.

J Proteome Res. 2016 Apr 1;15(4):1230-42. doi: 10.1021/acs.jproteome.5b01119. Epub 2016 Mar 18.

PMID:
26958999
17.

Survivin Autoantibodies Are Not Elevated in Lung Cancer When Assayed Controlling for Specificity and Smoking Status.

Broodman I, VanDuijn MM, Stingl C, Dekker LJ, Germenis AE, de Koning HJ, van Klaveren RJ, Aerts JG, Lindemans J, Luider TM.

Cancer Immunol Res. 2016 Feb;4(2):165-72. doi: 10.1158/2326-6066.CIR-14-0176. Epub 2015 Dec 11.

18.

De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra.

Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Dvorkin M, Alexandrova S, Luider TM, Paša-Tolić L, Pevzner PA.

J Proteome Res. 2015 Nov 6;14(11):4450-62. doi: 10.1021/pr501244v. Epub 2015 Oct 13.

PMID:
26412692
19.

Dimerization of peptides by calcium ions: investigation of a calcium-binding motif.

Jamalian A, Sneekes EJ, Dekker LJ, Ursem M, Luider TM, Burgers PC.

Int J Proteomics. 2014;2014:153712. doi: 10.1155/2014/153712. Epub 2014 Sep 14.

20.

Circulating glioma biomarkers.

Kros JM, Mustafa DM, Dekker LJ, Sillevis Smitt PA, Luider TM, Zheng PP.

Neuro Oncol. 2015 Mar;17(3):343-60. doi: 10.1093/neuonc/nou207. Epub 2014 Sep 24. Review.

21.

Identifying Ca2+-binding sites in proteins by liquid chromatography-mass spectrometry using Ca2+-directed dissociations.

Jamalian A, Sneekes EJ, Wienk H, Dekker LJ, Ruttink PJ, Ursem M, Luider TM, Burgers PC.

Mol Cell Proteomics. 2014 Nov;13(11):3177-83. doi: 10.1074/mcp.M114.038182. Epub 2014 Jul 14.

22.

De novo protein sequencing by combining top-down and bottom-up tandem mass spectra.

Liu X, Dekker LJ, Wu S, Vanduijn MM, Luider TM, Tolić N, Kou Q, Dvorkin M, Alexandrova S, Vyatkina K, Paša-Tolić L, Pevzner PA.

J Proteome Res. 2014 Jul 3;13(7):3241-8. doi: 10.1021/pr401300m. Epub 2014 Jun 18.

PMID:
24874765
23.

Serum kynurenine/tryptophan ratio is not a potential marker for detecting prostate cancer.

Rodríguez-Blanco G, Burgers PC, Dekker LJ, Vredenbregt-van den Berg MS, Ijzermans JN, Schenk-Braat EA, Jenster G, Luider TM.

Clin Biochem. 2014 Sep;47(13-14):1347-8. doi: 10.1016/j.clinbiochem.2014.05.001. Epub 2014 May 13. No abstract available.

PMID:
24833358
24.
25.

Peptides from the variable region of specific antibodies are shared among lung cancer patients.

de Costa D, Broodman I, Calame W, Stingl C, Dekker LJ, Vernhout RM, de Koning HJ, Hoogsteden HC, Sillevis Smitt PA, van Klaveren RJ, Luider TM, Vanduijn MM.

PLoS One. 2014 May 1;9(5):e96029. doi: 10.1371/journal.pone.0096029. eCollection 2014.

26.

Serum levels of arachidonic acid metabolites change during prostate cancer progression.

Rodríguez-Blanco G, Burgers PC, Dekker LJ, Ijzermans JJ, Wildhagen MF, Schenk-Braat EA, Bangma CH, Jenster G, Luider TM.

Prostate. 2014 May;74(6):618-27. doi: 10.1002/pros.22779. Epub 2014 Jan 16.

PMID:
24435810
27.

Collagen peptides in urine: a new promising biomarker for the detection of colorectal liver metastases.

Bröker ME, Lalmahomed ZS, Roest HP, van Huizen NA, Dekker LJ, Calame W, Verhoef C, Ijzermans JN, Luider TM.

PLoS One. 2013 Aug 16;8(8):e70918. doi: 10.1371/journal.pone.0070918. eCollection 2013.

28.

Cerebrospinal-fluid-derived immunoglobulin G of different multiple sclerosis patients shares mutated sequences in complementarity determining regions.

Singh V, Stoop MP, Stingl C, Luitwieler RL, Dekker LJ, van Duijn MM, Kreft KL, Luider TM, Hintzen RQ.

Mol Cell Proteomics. 2013 Dec;12(12):3924-34. doi: 10.1074/mcp.M113.030346. Epub 2013 Aug 22.

29.

Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches.

Liu NQ, Dekker LJ, Stingl C, Güzel C, De Marchi T, Martens JW, Foekens JA, Luider TM, Umar A.

J Proteome Res. 2013 Oct 4;12(10):4627-41. doi: 10.1021/pr4005794. Epub 2013 Sep 13.

PMID:
23957277
30.

Serum proteomics in amnestic mild cognitive impairment.

Ijsselstijn L, Papma JM, Dekker LJ, Calame W, Stingl C, Koudstaal PJ, Prins ND, Sillevis Smitt PA, Luider TM.

Proteomics. 2013 Aug;13(16):2526-33. doi: 10.1002/pmic.201200190. Epub 2013 Jul 19.

PMID:
23868823
31.

Comparative study of targeted and label-free mass spectrometry methods for protein quantification.

IJsselstijn L, Stoop MP, Stingl C, Sillevis Smitt PA, Luider TM, Dekker LJ.

J Proteome Res. 2013 Apr 5;12(4):2005-11. doi: 10.1021/pr301221f. Epub 2013 Mar 21.

PMID:
23464858
32.
33.

Minocycline effects on the cerebrospinal fluid proteome of experimental autoimmune encephalomyelitis rats.

Stoop MP, Rosenling T, Attali A, Meesters RJ, Stingl C, Dekker LJ, van Aken H, Suidgeest E, Hintzen RQ, Tuinstra T, van Gool A, Luider TM, Bischoff R.

J Proteome Res. 2012 Aug 3;11(8):4315-25. doi: 10.1021/pr300428e. Epub 2012 Jul 25.

PMID:
22768796
34.

Optimized nLC-MS workflow for laser capture microdissected breast cancer tissue.

Braakman RB, Tilanus-Linthorst MM, Liu NQ, Stingl C, Dekker LJ, Luider TM, Martens JW, Foekens JA, Umar A.

J Proteomics. 2012 Jun 6;75(10):2844-54. doi: 10.1016/j.jprot.2012.01.022. Epub 2012 Jan 24.

PMID:
22296676
35.

A proteome comparison between physiological angiogenesis and angiogenesis in glioblastoma.

Mustafa DA, Dekker LJ, Stingl C, Kremer A, Stoop M, Sillevis Smitt PA, Kros JM, Luider TM.

Mol Cell Proteomics. 2012 Jun;11(6):M111.008466. doi: 10.1074/mcp.M111.008466. Epub 2012 Jan 25.

36.

Mass spectrometry analyses of κ and λ fractions result in increased number of complementarity-determining region identifications.

Broodman I, de Costa D, Stingl C, Dekker LJ, VanDuijn MM, Lindemans J, van Klaveren RJ, Luider TM.

Proteomics. 2012 Jan;12(2):183-91. doi: 10.1002/pmic.201100244. Epub 2011 Dec 20.

PMID:
22120973
37.

Serum levels of pregnancy zone protein are elevated in presymptomatic Alzheimer's disease.

Ijsselstijn L, Dekker LJ, Stingl C, van der Weiden MM, Hofman A, Kros JM, Koudstaal PJ, Sillevis Smitt PA, Ikram MA, Breteler MM, Luider TM.

J Proteome Res. 2011 Nov 4;10(11):4902-10. doi: 10.1021/pr200270z. Epub 2011 Sep 28.

PMID:
21879768
38.

Multiple reaction monitoring assay for pre-eclampsia related calcyclin peptides in formalin fixed paraffin embedded placenta.

Güzel C, Ursem NT, Dekker LJ, Derkx P, Joore J, van Dijk E, Ligtvoet G, Steegers EA, Luider TM.

J Proteome Res. 2011 Jul 1;10(7):3274-82. doi: 10.1021/pr1010795. Epub 2011 Mar 24.

PMID:
21329384
39.

Serum clusterin levels are not increased in presymptomatic Alzheimer's disease.

IJsselstijn L, Dekker LJ, Koudstaal PJ, Hofman A, Sillevis Smitt PA, Breteler MM, Luider TM.

J Proteome Res. 2011 Apr 1;10(4):2006-10. doi: 10.1021/pr101221h. Epub 2011 Feb 22.

PMID:
21280673
40.

Label-free peptide profiling of Orbitrap™ full mass spectra.

Titulaer MK, de Costa D, Stingl C, Dekker LJ, Sillevis Smitt PA, Luider TM.

BMC Res Notes. 2011 Jan 27;4:21. doi: 10.1186/1756-0500-4-21.

41.

An antibody-based biomarker discovery method by mass spectrometry sequencing of complementarity determining regions.

Dekker LJ, Zeneyedpour L, Brouwer E, van Duijn MM, Sillevis Smitt PA, Luider TM.

Anal Bioanal Chem. 2011 Jan;399(3):1081-91. doi: 10.1007/s00216-010-4361-9. Epub 2010 Nov 24.

42.

Proteomics comparison of cerebrospinal fluid of relapsing remitting and primary progressive multiple sclerosis.

Stoop MP, Singh V, Dekker LJ, Titulaer MK, Stingl C, Burgers PC, Sillevis Smitt PA, Hintzen RQ, Luider TM.

PLoS One. 2010 Aug 27;5(8):e12442. doi: 10.1371/journal.pone.0012442.

43.

Ultrafast and high-throughput mass spectrometric assay for therapeutic drug monitoring of antiretroviral drugs in pediatric HIV-1 infection applying dried blood spots.

Meesters RJ, van Kampen JJ, Reedijk ML, Scheuer RD, Dekker LJ, Burger DM, Hartwig NG, Osterhaus AD, Luider TM, Gruters RA.

Anal Bioanal Chem. 2010 Sep;398(1):319-28. doi: 10.1007/s00216-010-3952-9. Epub 2010 Jul 15.

44.

Ultra-fast analysis of plasma and intracellular levels of HIV protease inhibitors in children: a clinical application of MALDI mass spectrometry.

van Kampen JJ, Reedijk ML, Burgers PC, Dekker LJ, Hartwig NG, van der Ende IE, de Groot R, Osterhaus AD, Burger DM, Luider TM, Gruters RA.

PLoS One. 2010 Jul 1;5(7):e11409. doi: 10.1371/journal.pone.0011409. Erratum in: PLoS One. 2010;5(7). doi: 10.1371/annotation/9e6e8b98-cc08-47be-9ab1-3f1928e12fed.

45.

Immune responses are characterized by specific shared immunoglobulin peptides that can be detected by proteomic techniques.

VanDuijn MM, Dekker LJ, Zeneyedpour L, Smitt PA, Luider TM.

J Biol Chem. 2010 Sep 17;285(38):29247-53. doi: 10.1074/jbc.M110.139071. Epub 2010 Jul 8.

46.

Differential expression of protease activity in serum samples of prostate carcinoma patients with metastases.

Dekker LJ, Burgers PC, Charif H, van Rijswijk AL, Titulaer MK, Jenster G, Bischoff R, Bangma CH, Luider TM.

Proteomics. 2010 Jun;10(12):2348-58. doi: 10.1002/pmic.200900682.

PMID:
20394078
47.

Sequencing and quantifying IgG fragments and antigen-binding regions by mass spectrometry.

de Costa D, Broodman I, Vanduijn MM, Stingl C, Dekker LJ, Burgers PC, Hoogsteden HC, Sillevis Smitt PA, van Klaveren RJ, Luider TM.

J Proteome Res. 2010 Jun 4;9(6):2937-45. doi: 10.1021/pr901114w.

PMID:
20387908
48.

Proteomic analyses of the developing chicken cardiovascular system.

Bon E, Steegers R, Steegers EA, Ursem N, Charif H, Burgers PC, Luider TM, Dekker LJ.

J Proteome Res. 2010 Jan;9(1):268-74. doi: 10.1021/pr900614w.

PMID:
19874049
49.

Characterization of recombinant influenza A virus as a vector for HIV-1 p17Gag.

de Goede AL, Boers PH, Dekker LJ, Osterhaus AD, Gruters RA, Rimmelzwaan GF.

Vaccine. 2009 Sep 25;27(42):5735-9. doi: 10.1016/j.vaccine.2009.07.032. Epub 2009 Jul 31.

PMID:
19647812
50.

A mass spectrometry based imaging method developed for the intracellular detection of HIV protease inhibitors.

Dekker LJ, van Kampen JJ, Reedijk ML, Burgers PC, Gruters RA, Osterhaus AD, Luider TM.

Rapid Commun Mass Spectrom. 2009 Apr;23(8):1183-8. doi: 10.1002/rcm.3981.

PMID:
19283784

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