Dept of Chemistry

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  • 2025

    PtL Fuels and Biofuels: A Dream Team?

    Mukherjee, A., Grahn, M., Hansson, J., Boter, T., Junginger, M., Rådberg, H., Wallington, T. J., de Jong, S. & De Kleine, R., 2025, Green Energy and Technology. Springer, p. 1127-1156 30 p. (Green Energy and Technology; vol. Part F3771).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • 2024

    Gut Microbes in Parkinson's Disease

    Markidi, A., Elford, J. D., Berkers, C., Kraneveld, A. D. & Perez-Pardo, P., 2024, The Gut-Brain Axis: Dietary, Probiotic, and Prebiotic Interventions on the Microbiota. 2 ed. p. 217-240 24 p.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • 2023

    Information-Driven Antibody-Antigen Modelling with HADDOCK

    Ambrosetti, F., Jandova, Z. & Bonvin, A. M. J. J., 10 Nov 2023, Methods in Molecular Biology. Tsumoto, K. & Kuroda, D. (eds.). 1 ed. New York: Humana Press, Vol. 2552. p. 267-282 16 p. (Methods in Molecular Biology; vol. 2552).

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  • Oxygenation of Anandamide by Lipoxygenases

    van Zadelhoff, G. & van der Stelt, M., 25 Sept 2023, Endocannabinoid Signaling: Methods and Protocols. Maccarrone, M. (ed.). 2 ed. New York: Humana Press, p. 307-316 10 p. (Methods in Molecular Biology; vol. 2576).

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  • Product Operator Formalism

    Boelens, R. & Kaptein, R., 14 Apr 2023, Two-Dimensional (2D) NMR Methods. Ivanov, K., Madhu, P. K. & Rajalakshmi, G. (eds.). Wiley, p. 47-92 46 p.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Sample Preparation of Isolated Mitochondria for Cryoelectron Tomography and In Situ Studies of Translation

    Thärichen, L., Englmeier, R. & Förster, F., 12 May 2023, Methods in Molecular Biology: Methods and Protocols. Barrientos, A. & Fontanesi, F. (eds.). 1 ed. New York: Humana Press, p. 75-88 14 p. (Methods in Molecular Biology; vol. 2661).

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  • Time-Resolved X-Ray Absorption Spectroscopy (XAS)

    Weckhuysen, B. M., Wondergem, C. S. & Vogt, C., 2023, Springer Handbooks. Springer, p. 601-623 23 p. (Springer Handbooks).

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  • Ultraviolet-Visible (UV-Vis) Spectroscopy

    Vogt, C., Wondergem, C. S. & Weckhuysen, B. M., 2023, Springer Handbooks. Springer, p. 237-264 28 p. (Springer Handbooks).

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  • 2022

    Cellular Cryo-Electron Tomography

    Judernatz, J. H., Roelofs, M. C. & Zeev-Ben-Mordehai, T., 1 Jan 2022, Encyclopedia of Cell Biology: Volume 1-6, Second Edition. Bradshaw, R. A., Hart, G. W. & Stahl, P. D. (eds.). Elsevier, Vol. 2. p. 4-15 12 p.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Inhibition of the HIF-1 Survival Pathway as a Strategy to Augment Photodynamic Therapy Efficacy

    on behalf of the Photodynamic Therapy Study Group, 4 May 2022, Photodynamic Therapy: Methods and Protocols. Broekgaarden, M., Zhang, H., Korbelik, M., Hamblin, M. R. & Heger, M. (eds.). 1 ed. Humana Press, p. 285-403 119 p. (Methods in Molecular Biology; vol. 2451).

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  • No dance, no partner! A tale of receptor flexibility in docking and virtual screening

    Basciu, A., Callea, L., Motta, S., Bonvin, A. M. J. J., Bonati, L. & Vargiu, A. V., Jan 2022, Virtual Screening and Drug Docking. Caballero, J. (ed.). Academic Press, p. 43-97 55 p. (Annual Reports in Medicinal Chemistry; vol. 59).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Optimal Use of 2',7'-Dichlorofluorescein Diacetate in Cultured Hepatocytes

    Reiniers, M. J., de Haan, L. R., Reeskamp, L. F., Broekgaarden, M., Hoekstra, R., van Golen, R. F. & Heger, M., 4 May 2022, Photodynamic Therapy: Methods and Protocols. Broekgaarden, M., Zhang, H., Korbelik, M., Hamblin, M. R. & Heger, M. (eds.). 1 ed. New York: Humana Press, p. 721-747 27 p. (Methods in Molecular Biology; vol. 2451).

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  • Strategies for Improving Photodynamic Therapy Through Pharmacological Modulation of the Immediate Early Stress Response

    on behalf of the Photodynamic Therapy Study Group, 2022, Methods in Molecular Biology. Broekgaarden, M., Zhang, H., Korbelik, M., Hamblin, M. R. & Heger, M. (eds.). Humana Press, p. 405-480 76 p. (Methods in Molecular Biology; vol. 2451).

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  • Super-Resolution Imaging of Intracellular Lipid Nanocarriers to Study Drug Delivery in Photodynamic Therapy

    Scutigliani, E. M., Kochan, J. A., Desclos, E. C. B., Jonker, A., Heger, M. & Krawczyk, P. M., 4 May 2022, Photodynamic Therapy: Methods and Protocols. Broekgaarden, M., Zhang, H., Korbelik, M., Hamblin, M. R. & Heger, M. (eds.). 1 ed. New York: Humana Press, p. 703-709 7 p. (Methods in Molecular Biology; vol. 2451).

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  • 2021

    Metal-Ligand Cooperation at Phosphine-Based Acceptor Pincer Ligands

    Tiddens, M. R. & Moret, M. E., 2021, Metal-Ligand Co-operativity: Catalysis and the Pincer-Metal Platform. Koten, G. V., Kirchner, K. & Moret, M.-E. (eds.). 1 ed. Springer, p. 25-69 45 p. (Topics in Organometallic Chemistry; vol. 68).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

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  • Methods | Mass spectrometry of native complexes

    Rose, R. J. & Heck, A. J. R., 29 Jul 2021, Encyclopedia of Biological Chemistry III. 3 ed. Elsevier, p. 780-785 6 p.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Pushing the limit of lithography for patterning two-dimensional lattices in III-V semiconductor quantum wells

    Vergel, N. A. F., Post, C., Vaurette, F., Lambert, Y., Yarekha, D., Coinon, C., Fleury, G., Kulmala, T. S., Xu, T., Desplanque, L., Wallart, X., Vanmaekelbergh, D., Delerue, C. & Grandidier, B., 8 Apr 2021, 2021 5th IEEE Electron Devices Technology & Manufacturing Conference (EDTM). IEEE, p. 1-3 3 p.

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  • Solid-State NMR Spectroscopy for Studying Microtubules and Microtubule-Associated Proteins

    Luo, Y., Xiang, S., Paioni, A. L., Adler, A., Hooikaas, P. J., Jijumon, A. S., Janke, C., Akhmanova, A. & Baldus, M., 2021, Structural Proteomics: High-Throughput Methods. Owens, R. J. (ed.). 3 ed. Humana Press, p. 193-201 9 p. (Methods in Molecular Biology; vol. 2305).

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  • Structure determination

    Mouhib, H., Stringer, B., Ingen, H. V., Gavaldá-García, J., Waury, K., Abeln, S. & Feenstra, K. A., 5 Aug 2021, Introduction to Protein Structural Bioinformatics.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic

  • 2020

    Cellular solid-state NMR spectroscopy

    Damman, R., Narasimhan, S., Weingarth, M. & Baldus, M., 1 Jan 2020, In-cell NMR Spectroscopy: From Molecular Sciences to Cell Biology. Ito, Y., Dotsch, V. & Shirakawa, M. (eds.). 21 ed. Royal Society of Chemistry, p. 131-151 21 p. (New Developments in NMR; vol. 2020-January, no. 21).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • operando methodology

    Weckhuysen, B. & Bañares, M. A., 18 Apr 2020, Catalysis from A to Z. Wiley-Blackwell, (Catalysis from A to Z).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Protein–Protein Modeling Using Cryo-EM Restraints

    Trellet, M., van Zundert, G. & Bonvin, A. M. J. J., 1 Feb 2020, Structural Bioinformatics: Methods and Protocols. Gáspári, Z. (ed.). New York, NY: Humana Press, p. 145-162 18 p. (Methods in Molecular Biology; vol. 2112).

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  • Recognition of Nucleosomes by Chromatin Factors: Lessons from Data-Driven Docking-Based Structures of Nucleosome-Protein Complexes

    Horn, V. & van Ingen, H., 2020, Chromatin and Epigenetics. Logie, C. & Knoch, T. A. (eds.). IntechOpen, p. 21-46

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  • 2019

    26S Proteasome: Structure and Function

    Förster, F. G., 19 Jun 2019, Reference Module in Biomedical Sciences. p. 595-600

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic

  • 26S Proteasome: Structure and Function

    Förster, F. G., 2019, Reference Module in Biomedical Sciences.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic

  • Functions and Mechanisms of the Human Ribosome-Translocon Complex

    Lang, S., Nguyen, D., Pfeffer, S., Förster, F., Helms, V. & Zimmermann, R., 1 Jan 2019, Subcellular Biochemistry. Cham: Springer, p. 83-141 59 p. (Subcellular Biochemistry; vol. 93).

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  • Hsp90 Chaperone in Disease

    Rüdiger, S. G. D. & Ferrari, L., 15 Nov 2019, Heat Shock Protein 90 in Human Diseases and Disorders. Asea, A. A. A. & Kaur, P. (eds.). 1 ed. Springer, p. 473-491 (Heat Shock Proteins; vol. 19).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

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  • 2018

    Artificial Metalloenzymes for Hydrogenation and Transfer Hydrogenation Reactions

    Basauri-molina, M. & Gebbink, R. J. M. K., 25 Mar 2018, Artificial Metalloenzymes and MetalloDNAzymes in Catalysis: From Design to Applications. Wiley - VCH Verlag GmbH & CO. KGaA, p. 171-197

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic

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  • Catalytic Conversion of Lignin-derived Aromatic Compounds into Chemicals

    Lancefield, C. S., Weckhuysen, B. M. & Bruijnincx, P. C. A., 2018, Lignin valorization: emerging approaches. Beckham, G. T. (ed.). RSC Publishing, p. 159-198 40 p. (Energy and Environment Series ).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic

  • CHAPTER 1.1. Disulfide Bonds in Protein Folding and Stability

    Feige, M. J., Braakman, I. & Hendershot, L. M., 31 Jul 2018, Oxidative Folding of Proteins: Basic Principles, Cellular Regulation and Engineering. Royal Society of Chemistry, p. 1-33 (Chemical Biology Series).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

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  • Characterization of Catalysts

    Mul, G., de Groot, F. M. F., Mojet-Mol, B. & Tromp, M., Jan 2018, Catalysis: An Integrated Textbook for Students. Hanefeld, U. & Lefferts, L. (eds.). Wiley, p. 271-314

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Computational Tools for the Structural Characterization of Proteins and Their Complexes from Sequence-Evolutionary Data

    Preto, A. J., Almeida, J. G., Schaarschmidt, J., Xue, L. C., Moreira, I. S. & Bonvin, A. M. J. J., 13 Mar 2018, Encyclopedia of Analytical Chemistry: Applications, Theory and Instrumentation. Meyers, R. A. (ed.). Wiley, p. 1-19

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  • Electron Tomography and Correlative Approaches in Platelet Studies

    Engberts, K. B., Seinen, C., Geerts, W. J. C. & Heijnen, H. F. G., 2018, Platelets and Megakaryocytes. Volume 4, Advanced Protocols and Perspectives. Humana Press, p. 55-79 25 p. (Methods in Molecular Biology; vol. 1812).

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  • Microscale Thermophoresis Analysis of Chromatin Interactions

    Corbeski, I., Horn, V., Van Der Valk, R. A., Le Paige, U. B., Dame, R. T. & Van Ingen, H., 15 Aug 2018, Bacterial Chromatin: Methods and Protocols. Dame, R. T. (ed.). Humana Press, p. 177-197 (Methods in Molecular Biology; vol. 1837).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

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  • Micro-Spectroscopy to Interrogate Solid Catalysts at Work

    Filez, M. I. P., Ristanovic, Z. & Weckhuysen, B. M., 2018, Reference Module in Chemistry, Molecular Sciences and Chemical Engineering. Elsevier, p. 304-320

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Rapid prediction of multi-dimensional NMR data sets using FANDAS

    Narasimhan, S., Mance, D., de Agrela Pinto, C., Weingarth, M., Bonvin, A. M. J. J. & Baldus, M., 2018, Protein NMR: Methods and Protocols. Ghose, R. (ed.). New York: Humana Press, p. 111-132 22 p. (Methods in Molecular Biology; vol. 1688).

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  • Solid-state NMR on complex biomolecules: Methods and applications

    Mance, D., Weingarth, M. & Baldus, M., 13 Jun 2018, Modern Magnetic Resonance. Webb, G. A. (ed.). 2 ed. Springer, p. 487-503 17 p.

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  • 2017

    Computer-Aided Drug Design Approaches to Study Key Therapeutic Targets in Alzheimer’s Disease

    Lemos, A., Melo, R., de Sousa Moreira, I. & Cordeiro, M. N. D. S., 2017, Computational Modeling of Drugs Against Alzheimer’s Disease. Springer, p. 61-106 45 p. (Neuromethods; vol. 132).

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  • Design and characterization of a microreactor for monodisperse catalytic droplet generation at both elevated temperatures and pressures

    Vollenbroek, J. C., Bomer, J. G., Van Den Berg, A., Odijk, M., Nieuwelink, A. E., Weckhuysen, B. M., Geitenbeek, R. G., Meijerink, A. & Tiggelaar, R. M., 25 Aug 2017, 2017 IEEE 12th International Conference on Nano/Micro Engineered and Molecular Systems, NEMS 2017. IEEE, p. 746-751 6 p. (2017 IEEE 12th International Conference on Nano/Micro Engineered and Molecular Systems, NEMS 2017).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • Information-Driven, Ensemble Flexible Peptide Docking Using HADDOCK

    Geng, C., Narasimhan, S., Garcia Lopes Maia Rodrigues, J. & Bonvin, A. M. J. J., 2017, Modeling Peptide-Protein Interactions: Methods and Protocols. Schueler-Furman, O. & London, N. (eds.). New York: Springer, Vol. 1561. p. 109-138 30 p. (Methods in Molecular Biology; vol. 1561).

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  • Luminescent labeling of nanoparticles: SiO2@LaPO4

    van Hest, J. & Meijerink, A., 2017, NATO Science for Peace and Security Series B: Physics and Biophysics. Springer, p. 471-472 2 p. (NATO Science for Peace and Security Series B: Physics and Biophysics).

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  • Optimized Enrichment of Phosphoproteomes by Fe-IMAC Column Chromatography

    Ruprecht, B., Koch, H., Domasinska, P., Frejno, M., Kuster, B. & Lemeer, S., 2017, Proteomics: Methods and Protocols. Walker, J. M., Comai, L., Katz, J. E. & Mallick, P. (eds.). Hertfordshore, UK, Vol. 1550. p. 47-60 14 p. ( Methods in Molecular Biology; vol. 1550).

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  • Prediction of Biomolecular Complexes

    Vangone, A., Oliva, R., Cavallo, L. & Bonvin, A. M. J. J., 25 Apr 2017, From Protein Structure to Function with Bioinformatics. Rigden, D. J. (ed.). 2 ed. Dordrecht: Springer, p. 265-292 28 p.

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  • Simplifying Access to 3, 4-Di-O-acetyl-1, 5 anhydro-2, 6-dideoxy-D- lyxo-hex-1-enitol (3, 4-Di-O-acetyl-d-fucal)

    Gagarinov, I. A., Srivastava, A. D., Boons, G. J. & Visansirikul, S., 5 Oct 2017, Carbohydrate Chemistry. Vogel, C. & Murphy, P. (eds.). Boca Raton: CRC Press, p. 195-200 6 p. (Proven Synthetic Methods; vol. 4).

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  • Spectroscopy of Zeolites

    Schmidt, J. E., Whiting, G. T., Chowdhury, A. D., Seoane de la Cuesta, B. & Weckhuysen, B. M., 7 Jun 2017, Zeolites in Catalysis: Properties and Applications. Royal Society of Chemistry, p. 240-276 (Zeolites in Catalysis).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

  • 2016

    A Self-Assembled Molecular Cage for Substrate-Selective Epoxidation Reactions in Aqueous Media

    Kuijpers, P. F., Otte, M., Dürr, M., Ivanović-Burmazović, I., Reek, J. N. H. & De Bruin, B., 6 May 2016, ACS Catalysis. American Chemical Society, p. 3106-3112 7 p. (ACS Catalysis; vol. 6).

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  • Combined Operando X-ray Diffraction/Raman Spectroscopy of Catalytic Solids in the Laboratory: The Co/TiO2 Fischer-Tropsch Synthesis Catalyst Showcase

    Cats, K. H. & Weckhuysen, B. M., 20 Apr 2016, ChemCatChem. Wiley-Blackwell, Vol. 8. p. 1531-1542 12 p. (ChemCatChem; vol. 8).

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  • Cu-Zeolite Selective Catalytic Reduction Catalysts for NOx Conversion

    Oord, R. & Weckhuysen, B. M., 23 May 2016, Zeolites and Zeolite-like Materials. Elsevier, p. 433-450 18 p.

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  • High-Energy Resolution XAS

    De Groot, F., 20 Oct 2016, XAFS Techniques for Catalysts, Nanomaterials, and Surfaces. Iwasawa, Y., Asakura, K. & Tada, M. (eds.). Springer, p. 229-236

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  • High-Resolution 3D structure determination of kaliotoxin by solid-state NMR spectroscopy

    Korukottu, J., Schneider, R., Vijayan, V., Lange, A., Pongs, O., Becker, S., Baldus, M. & Zweckstetter, M., 19 Apr 2016, Spectroscopy: New Uses and Implications. Apple Academic Press, p. 117-139 23 p.

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review