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(Co)-corresponding author


Bagka, M., Choi, H., Heritier, M., Schwaemmle, H., Pasquer, Q. T. L., Braun, S. G.,  Scapozza, L., Wu, Y., Hoogendoorn, S.   (2023) Targeted protein degradation reveals BET bromodomains as the cellular target of Hedgehog Pathway Inhibitor-1. Nature Communications, 14, 3839.  BioRxiv:

Cadoux, C., Ratcliff, D., Maslać, N., Gu, W., Tsakoumagkos, I., Hoogendoorn, S., Wagner, T and Milton, R.D.*  (2023) Nitrogen fixation and hydrogen evolution by sterically encumbered Mo-nitrogenase. JACS Au, 3, 5, 1521-1533  

Schumacher, M.,  Hoogendoorn, S. (2023) Out with a bang: celebrating global chemical biology. ACS Chemical Biology, 18, 2, 218-222. Conference report


Lopez-Andarias, J., Eblighatian, K., Pasquer, Q. T. L., Assies, L., Sakai, N., Hoogendoorn, S., Matile, S. (2022) Photocleavable Fluorescent Membrane Tension Probes:  Fast Release with Spatiotemporal Control in Inner Leaflets of Plasma Membrane, Nuclear Envelope, and Secretory Pathway. Angew. Chem. Int. Ed., 61, e202113163

Hoogendoorn, S., Winssinger, N., Matile, S. (2022) “SCS Spring Meeting 2022 on Biosupramolecular Chemistry, University of Geneva, Auditoire Marignac, April 22, 2022”CHIMIA, 76, 604-606. Conference report


Assies, L., García-Calvo, J., Piazzolla, F., Sanchez, S., Kato, T., Reymond, L., Goujon, A., Colom, A., López-Andarias, J., Straková, K., Mahecic, D., Mercier, V., Riggi, M., Jiménez-Rojo, N., Roffay, C., Licari, G., Tsemperouli, M., Neuhaus, F., Fürstenberg, A., Vauthey, E., Hoogendoorn, S., Gonzalez-Gaitan, M., Zumbuehl, A., Sugihara, K., Gruenberg, J., Riezman, H., Loewith, R., Manley, S., Roux, A., Winssinger, N., Sakai, N., Pitsch, S., Matile, S. (2021) Flipper Probes for the Community, CHIMIA, 75, 1004-1011


Pasquer, Q. T. L., Tsakoumagkos, I. A., Hoogendoorn, S.    (2020) From Phenotypic Hit to Chemical Probe: Chemical Biology Approaches to Elucidate Small Molecule Action in Complex Biological Systems. Molecules, 25(23), 5702.
Invited contribution for the special issue '25th Anniversary of Molecules—Recent Advances in Chemical Biology'. Review Article.
Hoogendoorn, S.    , van Puijvelde, G.H.M., van der Marel, G.A., van Koppen, C.J., Timmers, C.M., Overkleeft, H.S. (2020) Fluorescent Small-Molecule Agonists as Follicle-Stimulating Hormone Receptor Imaging Tools, RSC Chemical Biology, 1:263-272
Hoogendoorn, S.   (2020) Small Molecules Targeting the Hedgehog Pathway: From Phenotype to Mechanistic Understanding, CHIMIA International Journal for Chemistry, 74:652-658(7)  DOI
Invited contribution for the special issue 'News from New Chemistry Professors in Switzerland'
Anker 1
Hoogendoorn, S.    , Aye, Y. (2020) Empowering Global Chemical Biology at the Dawn of the New Decade, ACS Chemical Biology, 15:1287-1291
conference report


Breslow, D.K.*, Hoogendoorn, S.*, Kopp, A.R., Morgens, D.W., Vu, B.K., Kennedy, M.C., Han, K., Li, A., Hess, G.T., Bassik, M.C., Chen, J.K., Nachury, M.V. (2018). A CRISPR-based screen for Hedgehog signaling provides insights into ciliary function and ciliopathies. Nature Genetics, 50:460-471. * Co-first author. BioRxiv:


Kallemeijn, W.W., Scheij, S., Hoogendoorn, S., Witte, M.D., Herrera Moro Chao, D., van Roomen, C.P.A.A., Ottenhoff, R., Overkleeft, H.S., Boot, R.G., Aerts, J.M.F.G. (2017). Investigations on therapeutic glucocerebrosidases through paired detection with fluorescent activity-based probes. PLoS ONE 12(2): e0170268.


de Bruin, G., Mock, E.D., Hoogendoorn, S., van den Nieuwendijk, A.M.C.H., Mazurek, J., van der Marel, G.A., Florea, B.I., Overkleeft, H.S. (2016). Enantioselective synthesis of adamantylalanine and carboranylalanine and their incorporation into the proteasome inhibitor bortezomib. Chemical Communications 52:4064-4067.


See, S.K., Hoogendoorn, S., Chung, A.H., Ye, F., Steinman, J.B., Sakata-Kato, T., Miller, R.M., Cupido, T., Zalyte, R., Carter, A.P., Nachury, M.V., Kapoor, T.M., Chen, J.K. (2016). Cytoplasmic Dynein Antagonists with Improved Potency and Isoform Selectivity. ACS Chemical Biology, 11:53–60.


van den Berg, R. J. B. H. N., van Rijssel, E. R., Ferraz, M. J., Houben, J., Strijland, A., Donker-Koopman, W. E., Wennekes, T., Bonger, K. M., Ghisaidoobe, A. B. T., Hoogendoorn, S., van der Marel, G. A., Codée, J. D. C., Overkleeft, H. S., Aerts, J. M. F. G. (2015). Synthesis and Evaluation of Hybrid Structures Composed of Two Glucosylceramide Synthase Inhibitors. ChemMedChem, 12:2042-2062


Hoogendoorn, S.*, Mock, E. D.*, Strijland, A., Donker-Koopman, W. E., van den Elst, H., van den Berg, R. J. B. H. N., Aerts, J. M. F. G., van der Marel, G. A., Overkleeft, H. S. (2015). Ortho-Carborane-Modified N-Substituted Deoxynojirimycins. European Journal of Organic Chemistry 20:4437-4446. *Co-first author


Wong, C.-S.*, Hoogendoorn, S.*, van der Marel, G.A., Overkleeft, H.S., Codée, J.C. (2015). Targeted Delivery of Fluorescent High-Mannose-Type Oligosaccharide Cathepsin Inhibitor Conjugates. ChemPlusChem 80:928-937. *Co-first author


Liu, N., Hoogendoorn, S., van de Kar, B., Kaptein, A., Barf, T., Driessen, C., Filippov, D.V., van der Marel, G. A., van der Stelt, M., Overkleeft, H.S. (2015). Direct and two-step bioorthogonal probes for Bruton’s tyrosine kinase based on ibrutinib: a comparative study. Organic & Biomolecular Chemistry 13:5147-5157.


Hoogendoorn, S., van Puijvelde, G.H.M., Kuiper, J., van der Marel, G.A., Overkleeft, H.S. (2014). A Multivalent Ligand for the Mannose-6-Phosphate Receptor for Endolysosomal Targeting of an Activity-Based Probe. Angewandte Chemie Int. Ed. 53: 10975-10978.


Li, K.-Y., Jiang, J., Witte, M.D., Kallemeijn, W.W., van den Elst, H., Wong, C.-S., Chander, S.D., Hoogendoorn, S., Beenakker, T.J.M., Codée, J.D.C., Aerts, J.M.F.G., van der Marel, G.A., Overkleeft, H.S. (2014). Synthesis of Cyclophellitol, Cyclophellitol Aziridine, and Their Tagged Derivatives. European Journal of Organic Chemistry, 27: 6030-6043.


Baggelaar, M.P., Janssen, F.J., van Esbroeck, A.C.M., den Dulk, H., Allara, M., Hoogendoorn, S., McGuire, R., Florea, B., Meeuwenoord, N., van den Elst, H., Visser, L., van der Marel, G.A., Brouwer, J., Doherty, P., Di Marzo, V., Overkleeft, H.S., van der Stelt, M. (2013). Identification of Novel DAG-lipase-α Inhibitors with Unprecedented Selectivity in Brain Using Comparative ABPP and In Silico Design. Angewandte Chemie Int. Ed. 52: 12081-12085.


Van der Linden, W.A., Li, N., Hoogendoorn, S., Ruben, M., Verdoes, M., Guo, J., Boons, G.-J., van der Marel, G.A., Florea, B.I., Overkleeft, H.S. Two-step bioorthogonal activity-based proteasome profiling using copper-free click reagents:  A comparative study.  Bioorganic & Medicinal Chemistry (2012) 20:662-666.


Willems, L.I., van der Linden, W.A., Li, N., Li, K.-Y., Liu, N., Hoogendoorn, S., van der Marel, G.A., Florea, B.I., Overkleeft, H.S. (2011). Bioorthogonal chemistry: Applications in activity-based protein profiling. Accounts of Chemical Research 44: 718-729. Review.


Hoogendoorn, S., Willems, L., Florea, B., Overkleeft, H. Hypersensitive response to over-reactive cysteines. (2011). Angewandte Chemie Int. Ed. 50: 5434-5436. Highlight.


Hoogendoorn, S., Blom A.E.M., Willems, L.I., van der Marel, G.A., Overkleeft, H.S. (2011). Synthesis of pH–activatable red fluorescent BODIPY dyes with distinct functionalities. Organic Letters, 13: 5656-5659.


Hoogendoorn, S., Habets, K.L., Passemard, S., Kuiper, J., van der Marel, G.A., Florea, B.I., Overkleeft, H.S. (2011). Targeted pH-dependent fluorescent activity-based cathepsin probes. Chemical Communications 47: 9363-9365.


Bonger, K.M.*, Hoogendoorn, S.*, van Koppen, C.J., Timmers, C.M., van der Marel, G.A., Overkleeft, H.S. (2011). Development of selective LH receptor agonists by heterodimerization with a FSH receptor antagonist. ACS Medicinal Chemistry Letters 2: 85-89. *Co-first author


Van Delft, P., Meeuwenoord, N.J., Hoogendoorn, S., Dinkelaar, J., Overkleeft, H.S., van der Marel, G.A., Filippov, D.V. (2010). Synthesis of oligoribonucleic acid conjugates using a cyclooctyne phosphoramidite. Organic Letters 12:5486-5489.


Bonger, K.M.*, Hoogendoorn, S.*, van Koppen, C.J., Timmers, C.M., Overkleeft, H.S., van der Marel, G.A. (2009). Synthesis and pharmacological evaluation of dimeric follicle-stimulating hormone receptor antagonists. ChemMedChem 4:2098-2102. *Co-first author


Gomes, I., Grushko, J.S., Golebiewska, U., Hoogendoorn, S., Gupta, A., Heimann, A.S., Ferro, E.S., Scarlata, S., Fricker, L.D., Devi, L.A. (2009). Novel endogenous peptide agonists of cannabinoid receptors. FASEB J. 23:3020-3029.

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