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Research Output 2006 2019

2015

Exosomal sorting of the viral oncoprotein LMP1 is restrained by TRAF2 association at signalling endosomes

Verweij, F. J., Heus, C., Kroeze, S., Cai, H. J., Kieff, E., Piersma, S. R., Jimenez, C. R., Middeldorp, J. M. & Pegtel, D. M., 2015, In : Journal of Extracellular Vesicles. 4, 26334.

Research output: Contribution to journalArticleAcademicpeer-review

Feasibility of label-free phosphoproteomics and application to base-line signaling of colorectal cancer cell lines

Piersma, S. R., Knol, J. C., de Reus, I., Labots, M., Sampadi, B. K., Pham, T. V., Ishihama, Y., Verheul, H. M. W. & Jimenez, C. R., 2015, In : Journal of Proteomics. 127, p. 247-258

Research output: Contribution to journalArticleAcademicpeer-review

Genome-wide siRNA Screen Identifies the Radiosensitizing Effect of Downregulation of MASTL and FOXM1 in NSCLC

Nagel, C. R., Stigter-van Walsum, M., Buijze, M., van den Berg, J., van der Meulen, I. H., Hodzic, J., Piersma, S. R., Pham, T. V., Jimenez, C. R., van Beusechem, V. W. & Brakenhoff, R. H., 2015, In : Molecular Cancer Therapeutics. 14, 6, p. 1434-1444

Research output: Contribution to journalArticleAcademicpeer-review

MicroRNA-124 and-137 cooperativity controls caspase-3 activity through BCL2L13 in hippocampal neural stem cells

Schouten, M., Fratantoni, S. A., Hubens, C. J., Piersma, S. R., Pham, T. V., Bielefeld, P., Voskuyl, R. A., Lucassen, P. J., Jimenez, C. R. & Fitzsimons, C. P., 2015, In : Scientific Reports. 5, 12448.

Research output: Contribution to journalArticleAcademicpeer-review

miR-200a-mediated suppression of non-muscle heavy chain IIb inhibits meningioma cell migration and tumor growth in vivo

Senol, O., Schaaij-Visser, T. B. M., Erkan, E. P., Dorfer, C., Lewandrowski, G., Pham, T. V., Piersma, S. R., Peerdeman, S. M., Strobel, T., Tannous, B., Saydam, N., Slavc, I., Knosp, E., Jimenez, C. R. & Saydam, O., 2015, In : Oncogene. 34, 14, p. 1790-1798

Research output: Contribution to journalArticleAcademicpeer-review

Neuroproteomics: Applications in Neuroscience and Neurology

Grinberg, L. T., Jimenez, C. R. & Li, K. W., 2015, In : Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics. 1854, 7, p. 703-704

Research output: Contribution to journalArticleAcademicpeer-review

24 Downloads (Pure)

Novel Biochemical Signatures of Early Stages of Alzheimer's Disease

Del Campo Milan, M., 2015

Research output: ThesisResearch VU University Amsterdam, graduation VU University AmsterdamAcademic

File

Proteomics of Colorectal Cancer in a Genomic Context: First Large-scale Mass Spectrometry-Based Analysis from the Cancer Genome Atlas

Jimenez, C. R. & Fijneman, R. J. A., 2015, In : Clinical Chemistry. 61, 9, p. 1126-1128

Research output: Contribution to journalArticleAcademicpeer-review

2014

Accurate quantitation of MHC-bound peptides by application of isotopically labeled peptide MHC complexes

Hassan, C., Kester, M. G. D., Oudgenoeg, G., De Ru, A. H., Janssen, G. M. C., Drijfhout, J. W., Spaapen, R. M., Jimenez, C. R., Heemskerk, M. H. M., Falkenburg, J. H. F. & van Veelen, P. A., 2014, In : Journal of Proteomics. 109, p. 240-244

Research output: Contribution to journalArticleAcademicpeer-review

Analysis of AKT and ERK1/2 protein kinases in extracellular vesicles isolated from blood of patients with cancer

van der Mijn, J. C., Sol, N., Mellema, W. W., Jimenez, C. R., Piersma, S. R., Dekker, H., Schulte, L. M., Smit, E. F., Broxterman, H. J., Skog, J., Tannous, B. A., Wurdinger, T. & Verheul, H. M., 2014, In : Journal of Extracellular Vesicles. 3, 25657.

Research output: Contribution to journalArticleAcademicpeer-review

Analysis of SecA2-dependent substrates in Mycobacterium marinum identifies protein kinase G (PknG) as a virulence effector.

van der Woude, A. D., Stoop, E. J. M., Stiess, M., Wang, Q., Ummels, R., van Stempvoort, G., Piersma, S. R., Cascioferro, A., Jimenez, C. R., Houben, E. N. G., Luirink, J., Pieters, J., van der Sar, A. M. & Bitter, W., 2014, In : Cellular Microbiology. 16, 2, p. 280-295

Research output: Contribution to journalArticleAcademicpeer-review

Biomarker Study Everolimus, een studie van de Borstkanker Onderzoek Groep Nederland

Kruger, D. T., Beelen, S., Sleijfer, M. P. H. M., Jansen, C. R., Jimenez, C. R., Linn, S. C. & Boven, E., 2014, In : Kanker Breed. 6, 2

Research output: Contribution to journalArticlePopular

Breast cancer classification by proteomic technologies: Current state of knowledge

Lam, S. W., Jimenez, C. R. & Boven, E., 2014, In : Cancer Treatment Reviews. 40, 1, p. 129-138

Research output: Contribution to journalArticleAcademicpeer-review

BRI2-BRICHOS is increased in human amyloid plaques in early stages of Alzheimer's disease

del Campo, M., Hoozemans, J. J. M., Dekkers, L. L., Rozemuller, A. J. M., Korth, C., Muller-Schiffmann, A., Scheltens, P., Blankenstein, M. A., Jimenez, C. R., Veerhuis, R. & Teunissen, C. E., 2014, In : Neurobiology of Aging. 35, 7, p. 1596-1604

Research output: Contribution to journalArticleAcademicpeer-review

Colorectal cancer candidate biomarkers identified by tissue secretome proteome profiling

de Wit, M., Kant, H., Piersma, S. R., Pham, T. V., Mongera, S., van Berkel, M. P. A., Boven, E., Ponten, F., Meijer, G. A., Jimenez, C. R. & Fijneman, R. J. A., 2014, In : Journal of Proteomics. 99, p. 26-39

Research output: Contribution to journalArticleAcademicpeer-review

Colorectal cancer derived organotypic spheroids maintain essential tissue characteristics but adapt their metabolism in culture

Rajcevic, U., Knol, J. C., Piersma, S. R., Bougnaud, S., Fack, F., Sundlisaeter, E., Sondenaa, K., Myklebust, R., Pham, T. V., Niclou, S. P. & Jimenez, C. R., 2014, In : Proteome Science. 12, 39.

Research output: Contribution to journalArticleAcademicpeer-review

Decoration of outer membrane vesicles with multiple antigens using an autotransporter approach.

Daleke, M. H., Felix, T., Soprova, Z., ten Hagen-Jongman ten, C. M., Vikström, D., Majlessi, L., Beskers, J., Follman, F., de Punder, K., van der Wel, N. N., Baumgarten, T., Pham, T. V., Piersma, S. R., Jimenez, C. R., van Ulsen, P., de Gier, J. W., Leclerc, C., Jong, W. S. & Luirink, S., 2014, In : Applied and Environmental Microbiology. 80, 18, p. 5854-5864

Research output: Contribution to journalArticleAcademicpeer-review

GPx2 Suppression of H2O2 Stress Links the Formation of Differentiated Tumor Mass to Metastatic Capacity in Colorectal Cancer

Emmink, B. L., Laoukili, J., Kipp, A. P., Koster, J., Govaert, K. M., Fatrai, S., Verheem, A., Steller, E. J. A., Brigelius-Flohe, R., Jimenez, C. R., Rinkes, I. H. M. B. & Kranenburg, O., 2014, In : Cancer Research. 74, 22, p. 6717-6730

Research output: Contribution to journalArticleAcademicpeer-review

Mass Spectrometry-Based Serum and Plasma Peptidome Profiling for Prediction of Treatment Outcome in Patients With Solid Malignancies

Labots, M., Schutte, L. M., van der Mun, J. C., Pham, T. V., Jimenez, C. R. & Verheul, H. M. W., 2014, In : The Oncologist. 19, 10, p. 1028-1039

Research output: Contribution to journalArticleAcademicpeer-review

Proteomic analysis of cerebrospinal fluid extracellular vesicles: A comprehensive dataset

Chiasserini, D., van Weering, J. R. T., Piersma, S. R., Pham, T. V., Malekzadeh, A., Teunissen, C. E., de Wit, H. & Jimenez, C. R., 2014, In : Journal of Proteomics. 106, p. 191-204

Research output: Contribution to journalArticleAcademicpeer-review

Proteomics of differential extraction fractions enriched for chromatin-binding proteins from colon adenoma and carcinoma tissues

Knol, J. C., de Wit, M., Albrethsen, J., Piersma, S. R., Pham, T. V., Mongera, S., Carvalho, B., Fijneman, R. J. A., Meijer, G. A. & Jimenez, C. R., 2014, In : Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics. 1844, 5, p. 1034-1043

Research output: Contribution to journalArticleAcademicpeer-review

55 Downloads (Pure)

Proteomics of experimental breast cancer: Towards application of novel protein biomarkers in the clinic

Warmoes, M. O., 2014

Research output: ThesisResearch VU University Amsterdam, graduation VU University AmsterdamAcademic

File
2013

Differential Detergent Extraction of Mycobacterium marinum Cell Envelope Proteins Identifies an Extensively Modified Threonine-Rich Outer Membrane Protein with Channel Activity

van der Woude, A. D., Mahendran, K. R., Ummels, R., Piersma, S. R., Pham, T. V., Jimenez, C. R., de Punder, K., van der Wel, N. N., Winterhalter, M., Luirink, S., Bitter, W. & Houben, E. N. G., 2013, In : Journal of Bacteriology. 195, 9, p. 2050-2059

Research output: Contribution to journalArticleAcademicpeer-review

Gene Set Based Integrated Data Analysis Reveals Phenotypic Differences in a Brain Cancer Model

Petersen, K., Rajcevic, U., Rahim, S. A. A., Jonassen, I., Kalland, K. H., Jimenez, C. R., Bjerkvig, R. & Niclou, S. P., 2013, In : PLoS ONE. 8, 7, e68288.

Research output: Contribution to journalArticleAcademicpeer-review

Interaction of 14-3-3 proteins with the Estrogen Receptor Alpha F domain provides a drug target interface

van Leeuwen, I. J., da Costa Pereira, D., Flach, K. D., Piersma, S. R., Haase, C., Bier, D., Yalcin, Z., Michalides, R., Feenstra, K. A., Jimenez, C. R., de Greef, T. F. A., Brunsveld, L., Ottmann, C., Zwart, W. & de Boer, A. H., 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 22, p. 8894-8899

Research output: Contribution to journalArticleAcademicpeer-review

Maspin is a marker for early recurrence in primary stage III and IV colorectal cancer

Snoeren, N., Emmink, B. L., Koerkamp, M. J. G., van Hooff, S. R., Goos, J. A. C. M., Van Houdt, W. J., de Wit, M., Prins, A. M., Piersma, S. R., Pham, T. V., Belt, E. J. T. H., Bril, H., Stockmann, H. B., Meijer, G. A., van Hillegersberg, R., Holstege, FC., Jimenez, C. R., Fijneman, R. J. A., Kranenburg, O. W. & Rinkes, I. H. M. B., 2013, In : British Journal of Cancer. 109, 6, p. 1636-1647

Research output: Contribution to journalArticleAcademicpeer-review

PKC alpha-Specific Phosphorylation of the Troponin Complex in Human Myocardium: A Functional and Proteomics Analysis

Kooij, V., Zhang, P. B., Piersma, S. R., Sequeira Oliveira, V., Boontje, N., Wijnker, P. J. M., Jimenez, C. R., Jaquet, K. E., dos Remedios, C., Murphy, A. M., van Eyk, J. E., van der Velden, J. & Stienen, G. J. M., 2013, In : PLoS ONE. 8, 10, 10 p., e74847.

Research output: Contribution to journalArticleAcademicpeer-review

26 Downloads (Pure)

Protein biomarkers for clinical application in colorectal cancer

de Wit, M., 2013

Research output: ThesisResearch VU University Amsterdam, graduation VU University AmsterdamAcademic

File

Proteomic Profiling of Mycobacterium tuberculosis Identifies Nutrient-starvation-responsive Toxin-antitoxin Systems

Albrethsen, J., Agner, J., Piersma, S. R., Hojrup, P., Pham, T. V., Weldingh, K., Jimenez, C. R., Andersen, P. & Rosenkrands, I., 2013, In : Molecular and Cellular Proteomics. 12, 5, p. 1180-1191

Research output: Contribution to journalArticleAcademicpeer-review

Proteomics in colorectal cancer translational research: Biomarker discovery for clinical applications

de Wit, M., Fijneman, R. J. A., Verheul, H. M. W., Meijer, G. A. & Jimenez, C. R., 2013, In : Clinical Biochemistry. 46, 6, p. 466-479

Research output: Contribution to journalArticleAcademicpeer-review

Proteomics of Genetically Engineered Mouse Mammary Tumors Identifies Fatty Acid Metabolism Members as Potential Predictive Markers for Cisplatin Resistance

Warmoes, M. O., Jaspers, J. E., Xu, G. T., Sampadi, B. K., Pham, T. V., Knol, J. C., Piersma, S. R., Boven, E., Jonkers, J., Rottenberg, S. & Jimenez, C. R., 2013, In : Molecular and Cellular Proteomics. 12, 5, p. 1319-1334

Research output: Contribution to journalArticleAcademicpeer-review

Surface proteomic analysis of osteosarcoma identifies EPHA2 as receptor for targeted drug delivery

Posthuma de Boer, J., Piersma, S. R., Pham, T. V., van Egmond, P. W., Knol, J. C., Cleton-Jansen, A. M., van Geer, M. A., van Beusechem, V. W., Kaspers, G. J. L., van Royen, B. J., Jimenez, C. R. & Helder, M. N., 2013, In : British Journal of Cancer. 109, 8, p. 2142-2154

Research output: Contribution to journalArticleAcademicpeer-review

The cancer secretome, current status and opportunities in the lung, breast and colorectal cancer context

Visser, B. M., de Wit, M., Lam, S. W. & Jimenez, C. R., 2013, In : Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics. 1834, 11, p. 2242-2258

Research output: Contribution to journalArticleAcademicpeer-review

The secretome of colon cancer stem cells contains drug-metabolizing enzymes

Emmink, B. L., Verheem, A., Van Houdt, W. J., Steller, E. J. A., Govaert, K. M., Pham, T. V., Piersma, S. R., Rinkes, I. H. M. B., Jimenez, C. R. & Kranenburg, O., 2013, In : Journal of Proteomics. 91, p. 84-96

Research output: Contribution to journalArticleAcademicpeer-review

Whole gel processing procedure for GeLC-MS/MS based proteomics

Piersma, S. R., Warmoes, M. O., de Wit, M., de Reus, I., Knol, J. C. & Jimenez, C. R., 2013, In : Proteome Science. 11, 17.

Research output: Contribution to journalArticleAcademicpeer-review

2012

An accurate paired sample test for count data

Pham, T. V. & Jimenez, C. R., 2012, In : Bioinformatics. 28, 18, p. I596-I602

Research output: Contribution to journalArticleAcademicpeer-review

Carcinoma origin dictates differential skewing of monocyte function

Bögels, M., Braster, R., Nijland, P. G., Gül, N., van de Luijtgaarden, W., Fijneman, R. J. A., Meijer, G. A., Jimenez, C. R., Beelen, R. H. J. & van Egmond, M., 2012, In : OncoImmunology. 1, 6, p. 798-809

Research output: Contribution to journalArticleAcademicpeer-review

Cell surface proteomics identifies glucose transporter type 1 and prion protein as candidate biomarkers for colorectal adenoma-to-carcinoma progression

de Wit, M., Jimenez, C. R., Carvalho, B., Belien, J. A. M., Delis-van Diemen, P. M., Mongera, S., Piersma, S. R., Vikas, M., Navani, S., Ponten, F., Meijer, G. A. & Fijneman, R. J. A., 2012, In : Gut. 61, 6, p. 855-864

Research output: Contribution to journalArticleAcademicpeer-review

Composition of the type VII secretion system membrane complex.

Houben, E. N. G., Bestebroer, J., Ummels, R., Wilson, L., Piersma, S. R., Jimenez, C. R., Ottenhoff, T. H. M., Luirink, S. & Bitter, W., 2012, In : Molecular Microbiology. 86, 2, p. 472-484

Research output: Contribution to journalArticleAcademicpeer-review

Label-free mass spectrometry-based proteomics for biomarker discovery and validation

Pham, T. V., Piersma, S. R., Oudgenoeg, G. & Jimenez, C. R., 2012, In : Expert review of molecular diagnostics. 12, 4, p. 343-359

Research output: Contribution to journalArticleAcademicpeer-review

Meningiomas: clinical needs and molecular insights

Peerdeman, S. M., Okay, S. & Jimenez, C. R., 2012, Tumors of the Central Nervous System. p. 39-46

Research output: Chapter in Book/Report/Conference proceedingChapterAcademic

Proteomics in studying cancer stem cell biology

Kranenburg, O., Emmink, B. L., Knol, J., Van Houdt, W. J., Rinkes, I. H. M. B. & Jimenez, C. R., 2012, In : Expert Review of Proteomics. 9, 3, p. 325-336

Research output: Contribution to journalArticleAcademicpeer-review

Proteomics of Mouse BRCA1-deficient Mammary Tumors Identifies DNA Repair Proteins with Potential Diagnostic and Prognostic Value in Human Breast Cancer

Warmoes, M. O., Jaspers, J. E., Pham, T. V., Piersma, S. R., Oudgenoeg, G., Massink, M. P. G., Waisfisz, Q., Rottenberg, S., Boven, E., Jonkers, J. & Jimenez, C. R., 2012, In : Molecular and Cellular Proteomics. 11, 7, M111.013334.

Research output: Contribution to journalArticleAcademicpeer-review

Proximal Fluid Proteome Profiling of Mouse Colon Tumors Reveals Biomarkers for Early Diagnosis of Human Colorectal Cancer

Fijneman, R. J. A., de Wit, M., Pourghiasian, M., Piersma, S. R., Pham, T. V., Warmoes, M. O., Lavaei, M., Piso, C., Smit, F., Delis-van Diemen, P. M., van Turenhout, S. T., Terhaar sive Droste, J. S., Mulder, C. J. J., Blankenstein, M. A., Roobanus-Maandag, E. C., Smits, R., Fodde, R., van Hinsbergh, V. W. M., Meijer, G. A. & Jimenez, C. R., 2012, In : Clinical Cancer Research. 18, 9, p. 2613-2624

Research output: Contribution to journalArticleAcademicpeer-review

Specific Chaperones for the Type VII Protein Secretion Pathway

Daleke, M. H., van der Woude, A. D., Parret, A. H. A., Ummels, R., Groot, A. M., Watson, D., Piersma, S. R., Jimenez, C. R., Luirink, J., Bitter, W. & Houben, E. N. G., 2012, In : Journal of Biological Chemistry. 287, 38, p. 31939-31947

Research output: Contribution to journalArticleAcademicpeer-review

The Proteome of the Locus Ceruleus in Parkinson's Disease: Relevance to Pathogenesis

van Dijk, K. D., Berendse, H. W., Drukarch, B., Fratantoni, S. A., Pham, T. V., Piersma, S. R., Huisman, E., Breve, J. J. P., Groenewegen, H. J., Jimenez, C. R. & van de Berg, W. D. J., 2012, In : Brain Pathology. 22, 4, p. 485-498

Research output: Contribution to journalArticleAcademicpeer-review