Publications

2019


Functional diversification of hybridoma produced antibodies by CRISPR/HDR genomic engineering.
Johan M.S. van der Schoot, Felix L. Fennemann, Michael Valente, Yusuf Dolen, Iris M. Hagemans, Anouk M.D. Becker, Camille M. Le Gall, Duco van Dalen, Alper Cevirgel, J. Armando C. van Bruggen, Melanie Engelfriet, Marieke F. Fransen, Tomislav Caval, Arthur E.H. Bentlage, Maaike Nederend, Jeanette H.W. Leusen, Albert J.R. Heck, Gestur Vidarsson, Carl G. Figdor, Martijn Verdoes, Ferenc A. Scheeren
doi: https://doi.org/10.1101/551382 bioRxiv


Synthetic Semiflexible and Bioactive Brushes.
Voerman D, Schluck M, Weiden J, Joosten B, Eggermont LJ, van den Eijnde T, Ignacio B, Cambi A, Figdor CG, Kouwer PHJ, Verdoes M, Hammink R, Rowan AE.
Biomacromolecules. 2019 Jun 13. doi: 10.1021/acs.biomac.9b00385. OPEN ACCESS


Biomaterial-Based Activation and Expansion of Tumor-Specific T Cells.
Schluck M, Hammink R, Figdor CG, Verdoes M, Weiden J.
Front Immunol. 2019 May 3;10:931. OPEN ACCESS


Attacking Tumors From All Sides: Personalized Multiplex Vaccines to Tackle Intratumor Heterogeneity.
Fennemann FL, de Vries IJM, Figdor CG, Verdoes M.
Front Immunol. 2019 Apr 16;10:824. OPEN ACCESS


Glutaminyl cyclase is an enzymatic modifier of the CD47- SIRPα axis and a target for cancer immunotherapy.
Logtenberg MEW, Jansen JHM, Raaben M, Toebes M, Franke K, Brandsma AM, Matlung HL, Fauster A, Gomez-Eerland R, Bakker NAM, van der Schot S, Marijt KA, Verdoes M, Haanen JBAG, van den Berg JH, Neefjes J, van den Berg TK, Brummelkamp TR, Leusen JHW, Scheeren FA, Schumacher TN.
Nat Med. 2019 Apr;25(4):612-619. Pubmed


The Alkyne Moiety as a Latent Electrophile in Irreversible Covalent Small Molecule Inhibitors of Cathepsin K.
Mons E, Jansen IDC, Loboda J, van Doodewaerd BR, Hermans J, Verdoes M, van Boeckel CAA, van Veelen PA, Turk B, Turk D, Ovaa H.
J Am Chem Soc. 2019 Feb 27;141(8):3507-3514. Pubmed


The Phosphoinositide Kinase PIKfyve Promotes Cathepsin-S-Mediated Major Histocompatibility Complex Class II Antigen Presentation.
Baranov MV, Bianchi F, Schirmacher A, van Aart MAC, Maassen S, Muntjewerff EM, Dingjan I, Ter Beest M, Verdoes M, Keyser SGL, Bertozzi CR, Diederichsen U, van den Bogaart G.
iScience. 2019 Jan 25;11:160-177. OPEN ACCESS

 


2018


Molecular Repolarisation of Tumour-Associated Macrophages.
van Dalen FJ, van Stevendaal MHME, Fennemann FL, Verdoes M, Ilina O.
Molecules. 2018 Dec 20;24(1). pii: E9. OPEN ACCESS


Endolysosomal-Escape Nanovaccines through Adjuvant-Induced Tumor Antigen Assembly for Enhanced Effector CD8+ T Cell Activation.
Qiu L, Valente M, Dolen Y, Jäger E, Beest MT, Zheng L, Figdor CG, Verdoes M.
Small. 2018 Apr;14(15):e1703539. Pubmed


Toll-like Receptor Agonist Conjugation: A Chemical Perspective.
Ignacio BJ, Albin TJ, Esser-Kahn AP, Verdoes M.
Bioconjug Chem. 2018 Mar 21;29(3):587-603. Pubmed



2017


Cathepsin B as a potential cystatin M/E target in the mouse hair follicle.

Oortveld MAW, van Vlijmen-Willems IMJJ, Kersten FFJ, Cheng T, Verdoes M, van Erp PEJ, Verbeek S, Reinheckel T, Hendriks WJAJ, Schalkwijk J, Zeeuwen PLJM.

FASEB J. 2017 Jun 8. pii: fj.201700267R. Pubmed


A Rab20-Dependent Membrane Trafficking Pathway Controls M. tuberculosis Replication by Regulating Phagosome Spaciousness and Integrity.

Schnettger L, Rodgers A, Repnik U, Lai RP, Pei G, Verdoes M, Wilkinson RJ, Young DB, Gutierrez MG.

Cell Host Microbe. 2017, 21, 619-628.e5. Pubmed


Live Cell Imaging and Profiling of Cysteine Cathepsin Activity using a Quenched Activity-based Probe.

Edgington-Mitchell, L. E.; Bogyo, M.; Verdoes, M.

Methods Mol. Biol. 2017, 1491, 145-159. Pubmed


2016


Opportunities for immunotherapy in microsatellite instable colorectal cancer.

Westdorp H, Fennemann FL, Weren RD, Bisseling TM, Ligtenberg MJ, Figdor CG, Schreibelt G, Hoogerbrugge N, Wimmers F, de Vries IJ

Cancer Immunol Immunother. 2016. 65(10):1249-59. Pubmed


Legumain is Activated in Macrophages during Pancreatitis.

Edgington-Mitchell LE, Wartmann T, Fleming AK, Gocheva V, van der Linden WA, Withana NP, Verdoes M, Aurelio L, Edgington-Mitchell D, Lieu T, Parker BS, Graham B, Reinheckel T, Furness JB, Joyce JA, Storz P, Halangk W, Bogyo M, Bunnett NW.

Am J Physiol Gastrointest Liver Physiol. 2016. ajpgi.00047.2016. Pubmed


Bifunctional Probes of Cathepsin Protease Activity and pH Reveal Alterations in Endolysosomal pH during Bacterial Infection.

Sanman LE, van der Linden WA, Verdoes M, Bogyo M.

Cell Chem Biol. 2016, 23, 793-804. Pubmed


Dual Modality Activity Based Probes as Molecular Imaging Agents for Vascular Inflammation.

Withana NP, Saito T, Ma X, Garland M, Liu C, Kosuge H, Amsallem M, Verdoes M, Ofori LO, Fischbein M, Arakawa M, Cheng Z, McConnell MV, Bogyo M.

J Nucl Med. 2016, pii: jnumed.115.171553. Pubmed


Non-invasive Imaging of Idiopathic Pulmonary Fibrosis Using Cathepsin Protease Probes.

Withana NP, Ma X, McGuire HM, Verdoes M, van der Linden WA, Ofori LO, Zhang R, Li H, Sanman LE, Wei K, Yao S, Wu P, Li F, Huang H, Xu Z, Wolters PJ, Rosen GD, Collard HR, Zhu Z, Cheng Z, Bogyo M.

Sci Rep. 2016, 6:19755. Pubmed


Labeling of active proteases in fresh-frozen tissues by topical application of quenched activity-based probes.

Withana, N.P.; Garland, M.; Verdoes, M.; Ofori, L.O.; Segal, E.; Bogyo, M.

Nat Protoc. 2016, 11, 184-91. Pubmed


2015


Cysteine Cathepsin Activity Suppresses Osteoclastogenesis of Myeloid-Derived Suppressor Cells in Breast Cancer.

Edgington-Mitchell, L. E.; Rautela, J.; Duivenvoorden, H. M.; Jayatilleke, K. M.; van der Linden, W.; Verdoes, M.; Bogyo, M.; Parker, B. S.

Oncotarget.2015, 6, 27008-22. Pubmed


Design of protease activated optical contrast agents that exploit a latent lysosomotropic effect for use in fluorescence-guided surgery.

Ofori, L. O.; Withana, N. P.; Prestwood, T. R.; Verdoes, M.; Brady, J. J.; Winslow, M. M.; Sorger, J.; Bogyo, M.

ACS Chem Biol. 2015, 10, 1977-88. Pubmed


Regulation of immunoproteasome function in the lung.

Keller, I. E.; Vosyka, O.; Takenaka, S.; Kloß, A.; Dahlmann, B.; Willems, L. I.; Verdoes, M.; Overkleeft, H. S.; Marcos, E.; Adnot, S.; Hauck, S. M.; Ruppert, C.; Günther, A.; Herold, S.; Ohno, S.; Adler, H.; Eickelberg, O.; Meiners, S.

Sci Rep. 2015, 5:10230. Pubmed


Detection of protease activity in cells and animals.

Verdoes, M.; Verhelst, S. H. L.

Biochim Biophys Acta. 2015,  pii: S1570-9639(15)00138-7. Pubmed


Design of a highly selective quenched activity-based probe and its application in dual color imaging studies of cathepsin S activity localization.

Oresic Bender, K; Ofori, L.; Van der Linden, W. A.; Mock, E. D.; Data, G.; Chowdhury,S.; Li, H.; Segal, E.; Sanchez Lopez, M.; Ellman, J. A.; Figdor, C. G.; Bogyo, M.; Verdoes, M.

J Am Chem Soc. 2015, 137, 4771-7. Pubmed


Detection of Intestinal Cancer by local, topical application of a Quenched Fluorescence Probe for Cysteine Cathepsins.

Segal, E.; Prestwood, T. R.; Van der Linden, W.; Carmi, Y.; Bhattacharya, N.; Verdoes, M.; Engleman, E. G.; Bogyo, M.

Chem Biol. 2015, 22, 148-158. Pubmed


Restoring immunosurveillance by dendritic cell vaccines and manipulation of the tumor microenvironment.

Vasaturo, A.; Verdoes, M.; De Vries, J.; Torensma, R.; Figdor, C. G.

Immunobiology. 2015, 220, 243-248. Pubmed


2014


Exploring dual electrophiles in peptide-based proteasome inhibitors: carbonyls and epoxides.

Xin, B. T.; de Bruin, G.; Verdoes, M.; Filippov, D. V.; van der Marel, G. A.; Overkleeft, H. S.

Org Biomol Chem. 2014, 12, 5710-5718. Pubmed


Assessing subunit dependency of the Plasmodium proteasome using small molecule inhibitors and active site probes.

Li, H.; Van der Linden, W. A.; Verdoes, M.; Florea, B. I.; McAllister, F. E.; Govindaswamy, K.; Elias, J. E.; Bhanot, P.; Overkleeft, H. S.; Bogyo, M. ACS Chem Biol. 2014, 9, 1869-1876. Pubmed


The right touch: Design of artificial antigen-presenting cells to stimulate the immune system.

Van der Weijden, J.; Paulis, L. E.; Verdoes, M.; Van Hest, J. C. M.; Figdor, C. G. Chemical Science. 2014, 5, 3355-3367. Pubmed


2013


An improved quenched fluorescent probe for imaging of cysteine cathepsin activity.

Verdoes, M.*; Oresic Bender, K.; Segal, E.; Van der Linden, W. A.; Salahuddin, S.; Withana, N. P.; Sanman, L. E.; Bogyo, M.* J Am Chem Soc. 2013, 135, 14726-30. Pubmed


Identification of a serine protease inhibitor which causes inclusion vacuole reduction and is lethal to Chlamydia trachomatis.

Gloeckl, S.; Ong, V. A.; Patel, P.; Tyndall, J. D.; Timms, P.; Beagley, K. W.; Allan, J. A.; Armitage, C. W.; Turnbull, L.; Whitchurch, C. B.; Merdanovic, M.; Ehrmann, M.; Powers, J. C.; Oleksyszyn, J.; Verdoes, M.; Bogyo, M.; Huston, W. M. Mol Microbiol. 2013, 89, 676-689. Pubmed


Relative quantification of proteasome activity by activity-based protein profiling and LC-MS/MS.

Li, N.; Kuo, C. L.; Paniagua, G.; van den Elst, H.; Verdoes, M.; Willems, L. I.; Van der Linden, W. A.; Ruben, M.; Van Genderen, E.; Gubbens, J.; van Wezel, G. P.; Overkleeft, H. S.; Florea, B. I. Nat Protoc. 2013, 8, 1155-1168. Pubmed


Functional imaging of legumain in cancer using a new quenched activity-based probe.

Edgington, L. E.; Verdoes, M.; Ortega, A.; Withana, N. P.; Lee, J.; Syed, S.; Bachmann, M. H.; Blum, G.; Bogyo, M.

J Am Chem Soc. 2013, 135, 174-182. Pubmed