Research output per year
Research output per year
Research output
- 42 results
Search results
-
2024
A pan-cancer analysis of the microbiome in metastatic cancer
Battaglia, T. W., Mimpen, I. L., Traets, J. J. H., van Hoeck, A., Zeverijn, L. J., Geurts, B. S., de Wit, G. F., Noë, M., Hofland, I., Vos, J. L., Cornelissen, S., Alkemade, M., Broeks, A., Zuur, C. L., Cuppen, E., Wessels, L., van de Haar, J. & Voest, E., 25 Apr 2024, In: Cell. 187, 9, p. 2324-2335.e19Research output: Contribution to journal › Article › Academic › peer-review
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Combining Genomic Biomarkers to Guide Immunotherapy in Non-Small Cell Lung Cancer
Van De Haar, J., Mankor, J. M., Hummelink, K., Monkhorst, K., Smit, E. F., Wessels, L. F. A., Cuppen, E., Aerts, J. G. J. V. & Voest, E. E., 1 Apr 2024, In: Clinical Cancer Research. 30, 7, p. 1307-1318 12 p.Research output: Contribution to journal › Article › Academic › peer-review
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Dietary cystine restriction increases the proliferative capacity of the small intestine of mice
de Jong, J. C. W., van Rooijen, K. S., Stigter, E. C. A., Gülersönmez, M. C., de Zoete, M. R., Top, J., Baars, M. J. D., Vercoulen, Y., Kuipers, F., Van Mil, S. W. C. & Ijssennagger, N., Jan 2024, In: PLoS ONE. 19, 1 January, e0290493.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile10 Downloads (Pure) -
EXO1 protects BRCA1-deficient cells against toxic DNA lesions
van de Kooij, B., Schreuder, A., Pavani, R., Garzero, V., Uruci, S., Wendel, T. J., van Hoeck, A., San Martin Alonso, M., Everts, M., Koerse, D., Callen, E., Boom, J., Mei, H., Cuppen, E., Luijsterburg, M. S., van Vugt, M. A. T. M., Nussenzweig, A., van Attikum, H. & Noordermeer, S. M., 15 Feb 2024, In: Molecular Cell. 84, 4, p. 659-674.e7Research output: Contribution to journal › Article › Academic › peer-review
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Improved detection of colibactin-induced mutations by genotoxic E. coli in organoids and colorectal cancer
Rosendahl Huber, A., Pleguezuelos-Manzano, C., Puschhof, J., Ubels, J., Boot, C., Saftien, A., Verheul, M., Trabut, L. T., Groenen, N., van Roosmalen, M., Ouyang, K. S., Wood, H., Quirke, P., Meijer, G., Cuppen, E., Clevers, H. & van Boxtel, R., 11 Mar 2024, In: Cancer Cell. 42, 3, p. 487-496.e6Research output: Contribution to journal › Article › Academic › peer-review
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Multi-omic analysis identifies hypoalbuminemia as independent biomarker of poor outcome upon PD-1 blockade in metastatic melanoma
Leek, L. V. M., Notohardjo, J. C. L., de Joode, K., Velker, E. L., Haanen, J. B. A. G., Suijkerbuijk, K. P. M., Aarts, M. J. B., de Groot, J. W. B., Kapiteijn, E., van den Berkmortel, F. W. P. J., Westgeest, H. M., de Gruijl, T. D., Retel, V. P., Cuppen, E., van der Veldt, A. A. M., Labots, M., Voest, E. E., van de Haar, J. & van den Eertwegh, A. J. M., 16 May 2024, In: Scientific Reports. 14, 1, 11244.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile2 Downloads (Pure) -
Next generation sequencing of high-grade adult-type diffuse glioma in the Netherlands: interlaboratory variation in the primary diagnostic and recurrent setting
van Opijnen, M. P., Broekman, M. L. D., Cuppen, E., Dubbink, H. J., Ter Elst, A., van Eijk, R., Mühlebner, A., Jansen, C., van der Geize, R., Speel, E-J. M., Groenen, P. J. T. A., de Vos, F. Y. F., Wesseling, P., de Leng, W. W. J. & Maas, S. L. N., Feb 2024, In: Journal of Neuro-Oncology. 166, 3, p. 485-492 8 p.Research output: Contribution to journal › Article › Academic › peer-review
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2023
Drug-repurposing screen on patient-derived organoids identifies therapy-induced vulnerability in KRAS-mutant colon cancer
Mertens, S., Huismans, M. A., Verissimo, C. S., Ponsioen, B., Overmeer, R., Proost, N., van Tellingen, O., van de Ven, M., Begthel, H., Boj, S. F., Clevers, H., Roodhart, J. M. L., Bos, J. L. & Snippert, H. J. G., 25 Apr 2023, In: Cell Reports. 42, 4, 112324.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile24 Downloads (Pure) -
Genetic immune escape landscape in primary and metastatic cancer
Martínez-Jiménez, F., Priestley, P., Shale, C., Baber, J., Rozemuller, E. & Cuppen, E., May 2023, In: Nature Genetics. 55, 5, p. 820-831 12 p.Research output: Contribution to journal › Article › Academic › peer-review
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Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine
Heinken, A., Hertel, J., Acharya, G., Ravcheev, D. A., Nyga, M., Okpala, O. E., Hogan, M., Magnúsdóttir, S., Martinelli, F., Nap, B., Preciat, G., Edirisinghe, J. N., Henry, C. S., Fleming, R. M. T. & Thiele, I., Sept 2023, In: Nature Biotechnology. 41, 9, p. 1320-1331 12 p.Research output: Contribution to journal › Article › Academic › peer-review
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Genomic Alterations Associated with Estrogen Receptor Pathway Activity in Metastatic Breast Cancer Have a Differential Impact on Downstream ER Signaling
Angus, L., Smid, M., Wilting, S. M., Bos, M. K., Steeghs, N., Konings, I. R. H. M., Tjan-Heijnen, V. C. G., van Riel, J. M. G. H., van de Wouw, A. J., Cpct Consortium, Cuppen, E., Lolkema, M. P., Jager, A., Sleijfer, S. & Martens, J. W. M., 4 Sept 2023, In: Cancers. 15, 17, 14 p., 4416.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile7 Downloads (Pure) -
Identifying somatic changes in drug transporters using whole genome and transcriptome sequencing data of advanced tumors
van de Geer, W. S., Mathijssen, R. H. J., van Riet, J., Steeghs, N., Labots, M., van Herpen, C., Devriese, L. A., Tjan-Heijnen, V. C. G., Voest, E. E., Sleijfer, S., Martens, J. W. M., Cuppen, E., van de Werken, H. J. G. & Bins, S., Mar 2023, In: Biomedicine and Pharmacotherapy. 159, 114210.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile6 Downloads (Pure) -
Inhibiting the Glucocorticoid Receptor to Enhance Chemotherapy Response
Prekovic, S. & Zwart, W., 20 Oct 2023, In: Journal of clinical oncology : official journal of the American Society of Clinical Oncology. 41, 30, p. 4790-4793 4 p.Research output: Contribution to journal › Article › Academic › peer-review
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Mammalian life depends on two distinct pathways of DNA damage tolerance
Buoninfante, O. A., Pilzecker, B., Spanjaard, A., de Groot, D., Prekovic, S., Song, J-Y., Lieftink, C., Ayidah, M., Pritchard, C. E. J., Vivié, J., Mcgrath, K. E., Huijbers, I. J., Philipsen, S., von Lindern, M., Zwart, W., Beijersbergen, R. L., Palis, J., van den Berk, P. C. M. & Jacobs, H., 24 Jan 2023, In: Proceedings of the National Academy of Sciences of the United States of America. 120, 4, e2216055120.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile3 Downloads (Pure) -
Multi-country metabolic signature discovery for chicken health classification
Wolthuis, J. C., Magnúsdóttir, S., Stigter, E., Tang, Y. F., Jans, J., Gilbert, M., van der Hee, B., Langhout, P., Gerrits, W., Kies, A., de Ridder, J. & van Mil, S., 2 Feb 2023, In: Metabolomics. 19, 2, 9.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile2 Downloads (Pure) -
Pan-cancer whole-genome comparison of primary and metastatic solid tumours
Martínez-Jiménez, F., Movasati, A., Brunner, S. R., Nguyen, L., Priestley, P., Cuppen, E. & Van Hoeck, A., 8 Jun 2023, In: Nature. 618, 7964, p. 333-341 9 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile28 Downloads (Pure) -
Pyruvate metabolism controls chromatin remodeling during CD4+ T cell activation
Mocholi, E., Russo, L., Gopal, K., Ramstead, A. G., Hochrein, S. M., Vos, H. R., Geeven, G., Adegoke, A. O., Hoekstra, A., van Es, R. M., Pittol, J. R., Vastert, S., Rutter, J., Radstake, T., van Loosdregt, J., Berkers, C., Mokry, M., Anderson, C. C., O'Connell, R. M., Vaeth, M., & 3 others, 27 Jun 2023, In: Cell Reports. 42, 6, p. 1-24 112583.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile11 Downloads (Pure) -
Rifaximin stimulates nitrogen detoxification by PXR-independent mechanisms in human small intestinal organoids
de Wit, K., Beuers, U., Mukha, A., Stigter, E., Gulersonmez, M. C., Ramos Pittol, J. M., Middendorp, S., Takkenberg, R. B. & van Mil, S. W. C., Mar 2023, In: Liver International. 43, 3, p. 649-659 11 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile16 Downloads (Pure) -
The genome-wide mutational consequences of DNA hypomethylation
Besselink, N., Keijer, J., Vermeulen, C., Boymans, S., de Ridder, J., van Hoeck, A., Cuppen, E. & Kuijk, E., 27 Apr 2023, In: Scientific Reports. 13, 1, 6874.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile1 Downloads (Pure) -
The genomic and transcriptomic landscape of advanced renal cell cancer for individualized treatment strategies
de Joode, K., van de Geer, W. S., van Leenders, G. J. L. H., Hamberg, P., Westgeest, H. M., Beeker, A., Oosting, S. F., van Rooijen, J. M., Beerepoot, L. V., Labots, M., Mathijssen, R. H. J., Lolkema, M. P., Cuppen, E., Sleijfer, S., van de Werken, H. J. G. & van der Veldt, A. A. M., 3 Jul 2023, In: Scientific Reports. 13, 1, p. 1-15 10720.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile3 Downloads (Pure) -
The Tumor Coagulome as a Transcriptional Target and a Potential Effector of Glucocorticoids in Human Cancers
Racine, F., Louandre, C., Godin, C., Chatelain, B., Prekovic, S., Zwart, W., Galmiche, A. & Saidak, Z., Mar 2023, In: Cancers. 15, 5, 15 p., 1531.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile7 Downloads (Pure) -
2022
Diagnostic accuracy of non-invasive tests for advanced fibrosis in patients with NAFLD: An individual patient data meta-analysis
May 2022, In: Gut. 71, 5, p. 1006-1019 14 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile81 Citations (Scopus) -
2021
Ablation of liver Fxr results in an increased colonic mucus barrier in mice
Ijssennagger, N., van Rooijen, K. S., Magnúsdóttir, S., Ramos Pittol, J. M., Willemsen, E. C. L., de Zoete, M. R., Baars, M. J. D., Stege, P. B., Colliva, C., Pellicciari, R., Youssef, S. A., de Bruin, A., Vercoulen, Y., Kuipers, F. & van Mil, S. W. C., Oct 2021, In: JHEP reports : innovation in hepatology. 3, 5, p. 1-10 100344.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile2 Citations (Scopus) -
MATISSE: a method for improved single cell segmentation in imaging mass cytometry
Baars, M. J. D., Sinha, N., Amini, M., Pieterman-Bos, A., van Dam, S., Ganpat, M. M. P., Laclé, M. M., Oldenburg, B. & Vercoulen, Y., Dec 2021, In: BMC Biology. 19, 1, p. 1-10 99.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile7 Downloads (Pure) -
Splice variants of metabolic nuclear receptors: Relevance for metabolic disease and therapeutic targeting
Mukha, A., Kalkhoven, E. & van Mil, S. W. C., 1 Oct 2021, In: Biochimica et Biophysica Acta - Molecular Basis of Disease. 1867, 10, p. 1-13 13 p., 166183.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile8 Downloads (Pure) -
2020
FXR Isoforms Control Different Metabolic Functions in Liver Cells via Binding to Specific DNA Motifs
Ramos Pittol, J. M., Milona, A., Morris, I., Willemsen, E. C. L., van der Veen, S. W., Kalkhoven, E. & van Mil, S. W. C., Nov 2020, In: Gastroenterology. 159, 5, p. 1853-1865.e10Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile -
MetaboShiny: interactive analysis and metabolite annotation of mass spectrometry-based metabolomics data
Wolthuis, J. C., Magnusdottir, S., Pras-Raves, M., Moshiri, M., Jans, J. J. M., Burgering, B., van Mil, S. & de Ridder, J., 11 Sept 2020, In: Metabolomics. 16, 9, p. 99Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile8 Downloads (Pure) -
2019
Farnesoid X receptor and bile acids regulate vitamin A storage
Saeed, A., Yang, J., Heegsma, J., Groen, A. K., van Mil, S. W. C., Paulusma, C. C., Zhou, L., Wang, B. & Faber, K. N., 1 Dec 2019, In: Scientific Reports. 9, 1, 11 p., 19493.Research output: Contribution to journal › Article › Academic › peer-review
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Identification of FDA-approved drugs targeting the Farnesoid X Receptor
van de Wiel, S. M. W., Bijsmans, I. T. G. W., van Mil, S. W. C. & van de Graaf, S. F. J., 18 Feb 2019, In: Scientific Reports. 9, 1, p. 2193 2193.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile1 Downloads (Pure) -
Steroidogenic control of liver metabolism through a nuclear receptor-network
Milona, A., Massafra, V., Vos, H., Naik, J., Artigas, N., Paterson, H. A. B., Bijsmans, I. T. G. W., Willemsen, E. C. L., Ramos Pittol, J. M., Miguel-Aliaga, I., Bosma, P., Burgering, B. M. T., Williamson, C., Vernia, S., Dhillo, W. S., van Mil, S. W. C. & Owen, B. M., Dec 2019, In: Molecular Metabolism. 30, p. 221-229 9 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile1 Downloads (Pure) -
2018
Een dag uit het leven van de zaalarts interne geneeskunde
Translated title of the contribution :A day in the life of a medical resident on the ward Research output: Contribution to journal › Article › Academic › peer-review
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Profiling of 3696 nuclear receptor-coregulator interactions: A resource for biological and clinical discovery
Broekema, M. F., Hollman, D. A. A., Koppen, A., Van Den Ham, H. J., Melchers, D., Pijnenburg, D., Ruijtenbeek, R., Van Mil, S. W. C., Houtman, R. & Kalkhoven, E., 1 Jun 2018, In: Endocrinology. 159, 6, p. 2397-2406 10 p.Research output: Contribution to journal › Article › Academic › peer-review
6 Citations (Scopus) -
Protein fermentation in the gut; implications for intestinal dysfunction in humans, pigs, and poultry
Gilbert, M. S., Ijssennagger, N., Kies, A. K. & van Mil, S. W. C., 1 Aug 2018, In: American Journal of Physiology-Gastrointestinal and Liver Physiology. 315, 2, p. G159-G170Research output: Contribution to journal › Article › Academic › peer-review
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The HAUS Complex Is a Key Regulator of Non-centrosomal Microtubule Organization during Neuronal Development
Cunha-Ferreira, I., Chazeau, A., Buijs, R. R., Stucchi, R., Will, L., Pan, X., Adolfs, Y., van der Meer, C., Wolthuis, J. C., Kahn, O. I., Schätzle, P., Altelaar, M., Pasterkamp, R. J., Kapitein, L. C. & Hoogenraad, C. C., 24 Jul 2018, In: Cell Reports. 24, 4, p. 791-800 10 p.Research output: Contribution to journal › Article › Academic › peer-review
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2017
Farnesoid X Receptor Activation Promotes Hepatic Amino Acid Catabolism and Ammonium Clearance in Mice
Massafra, V., Milona, A., Vos, H. R., Ramos, R. J. J., Gerrits, J., Willemsen, E. C. L., Ramos Pittol, J. M., Ijssennagger, N., Houweling, M., Prinsen, H. C. M. T., Verhoeven-Duif, N. M., Burgering, B. M. T. & van Mil, S. W. C., 1 May 2017, In: Gastroenterology. 152, 6, p. 1462-1476.e10Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile -
Quantitative liver proteomics identifies FGF19 targets that couple metabolism and proliferation
Massafra, V., Milona, A., Vos, H. R., Burgering, B. M. T. & Van Mil, S. W. C., 1 Feb 2017, In: PLoS ONE [E]. 12, 2, e0171185.Research output: Contribution to journal › Article › Academic › peer-review
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2016
Gene expression profiling in human precision cut liver slices in response to the FXR agonist obeticholic acid
Ijssennagger, N., Janssen, A. W. F., Milona, A., Ramos Pittol, J. M., Hollman, D. A. A., Mokry, M., Betzel, B., Berends, F. J., Janssen, I. M., van Mil, S. W. C. & Kersten, S., 2016, In: Journal of Hepatology. 64, 5, p. 1158-1166 9 p.Research output: Contribution to journal › Article › Academic › peer-review
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Gut Microbial Diversity Is Reduced in Smokers with Crohn's Disease
Opstelten, J. L., Plassais, J., van Mil, S. W. C., Achouri, E., Pichaud, M., Siersema, P. D., Oldenburg, B. & Cervino, A. C. L., Sept 2016, In: Inflammatory bowel diseases. 22, 9, p. 2070-2077 8 p.Research output: Contribution to journal › Article › Academic › peer-review
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Splenic dendritic cell involvement in FXR-mediated amelioration of DSS colitis
Massafra, V., Ijssennagger, N., Plantinga, M., Milona, A., Ramos Pittol, J. M., Boes, M. & van Mil, S. W. C., 1 Feb 2016, In: Biochimica et Biophysica Acta. Molecular Basis of Disease. 1862, 2, p. 166-173 8 p.Research output: Contribution to journal › Article › Academic › peer-review
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Sulfide as a Mucus Barrier-Breaker in Inflammatory Bowel Disease?
Ijssennagger, N., van der Meer, R. & van Mil, S. W. C., 2016, In: Trends in molecular medicine. 22, 3, p. 190-199 10 p.Research output: Contribution to journal › Article › Academic › peer-review
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2015
Gut microbiota facilitates dietary heme-induced epithelial hyperproliferation by opening the mucus barrier in colon
Ijssennagger, N., Belzer, C., Hooiveld, G. J., Dekker, J., van Mil, SWC., Müller, M., Kleerebezem, M. & van der Meer, R., 11 Aug 2015, In: Proceedings of the National Academy of Sciences of the United States of America. 112, 32, p. 10038-43 6 p.Research output: Contribution to journal › Article › Academic › peer-review
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The glucocorticoid mometasone furoate is a novel FXR ligand that decreases inflammatory but not metabolic gene expression
Bijsmans, I. T. G. W., Guercini, C., Ramos Pittol, J. M., Omta, W., Milona, A., Lelieveld, D., Egan, D. A., Pellicciari, R., Gioiello, A. & van Mil, S. W. C., 15 Sept 2015, In: Scientific Reports. 5, 14086.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile