• Netherlands

  • Netherlands

Research Output

2017

FANTOM5 CAGE profiles of human and mouse samples

Noguchi, S., Arakawa, T., Fukuda, S., Furuno, M., Hasegawa, A., Hori, F., Ishikawa-Kato, S., Kaida, K., Kaiho, A., Kanamori-Katayama, M., Kawashima, T., Kojima, M., Kubosaki, A., Manabe, R., Murata, M., Nagao-Sato, S., Nakazato, K., Ninomiya, N., Nishiyori-Sueki, H., Noma, S. & 158 others, Saijyo, E., Saka, A., Sakai, M., Simon, C., Suzuki, N., Tagami, M., Watanabe, S., Yoshida, S., Arner, P., Axton, R. A., Babina, M., Baillie, J. K., Barnett, T. C., Beckhouse, A. G., Blumenthal, A., Bodega, B., Bonetti, A., Briggs, J., Brombacher, F., Carlisle, A. J., Clevers, H. C., Davis, C. A., Detmar, M., Dohi, T., Edge, A. S. B., Edinger, M., Ehrlund, A., Ekwall, K., Endoh, M., Enomoto, H., Eslami, A., Fagiolini, M., Fairbairn, L., Farach-Carson, M. C., Faulkner, G. J., Ferrai, C., Fisher, M. E., Forrester, L. M., Fujita, R., Furusawa, J., Geijtenbeek, T. B., Gingeras, T., Goldowitz, D., Guhl, S., Guler, R., Gustincich, S., Ha, T. J., Hamaguchi, M., Hara, M., Hasegawa, Y., Herlyn, M., Heutink, P., Hitchens, K. J., Hume, D. A., Ikawa, T., Ishizu, Y., Kai, C., Kawamoto, H., Kawamura, Y. I., Kempfle, J. S., Kenna, T. J., Kere, J., Khachigian, L. M., Kitamura, T., Klein, S., Klinken, S. P., Knox, A. J., Kojima, S., Koseki, H., Koyasu, S., Lee, W., Lennartsson, A., Mackay-Sim, A., Mejhert, N., Mizuno, Y., Morikawa, H., Morimoto, M., Moro, K., Morris, K. J., Motohashi, H., Mummery, C. L., Nakachi, Y., Nakahara, F., Nakamura, T., Nakamura, Y., Nozaki, T., Ogishima, S., Ohkura, N., Ohno, H., Ohshima, M., Okada-Hatakeyama, M., Okazaki, Y., Orlando, V., Ovchinnikov, D. A., Passier, R., Patrikakis, M., Pombo, A., Pradhan-Bhatt, S., Qin, X-Y., Rehli, M., Rizzu, P., Roy, S., Sajantila, A., Sakaguchi, S., Sato, H., Satoh, H., Savvi, S., Saxena, A., Schmidl, C., Schneider, C., Schulze-Tanzil, G. G., Schwegmann, A., Sheng, G., Shin, J. W., Sugiyama, D., Sugiyama, T., Summers, K. M., Takahashi, N., Takai, J., Tanaka, H., Tatsukawa, H., Tomoiu, A., Toyoda, H., van de Wetering, M., van den Berg, L. M., Verardo, R., Vijayan, D., Wells, C. A., Winteringham, L. N., Wolvetang, E., Yamaguchi, Y., Yamamoto, M., Yanagi-Mizuochi, C., Yoneda, M., Yonekura, Y., Zhang, P. G., Zucchelli, S., Abugessaisa, I., Arner, E., Harshbarger, J., Kondo, A., Lassmann, T., Lizio, M., Sahin, S., Sengstag, T., Severin, J., Shimoji, H., Suzuki, M., Suzuki, H., Kawai, J., Kondo, N., Itoh, M., Daub, C. O., Kasukawa, T., Kawaji, H., Carninci, P., Forrest, A. R. R. & Hayashizaki, Y., 29 Aug 2017, In : Scientific data. 4, p. 170112

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Fine-tuning and autoregulation of the intestinal determinant and tumor suppressor homeobox gene CDX2 by alternative splicing

Balbinot, C., Vanier, M., Armant, O., Nair, A., Penichon, J., Soret, C., Martin, E., Saandi, T., Reimund, J-M., Deschamps, J., Beck, F., Domon-Dell, C., Gross, I., Duluc, I. & Freund, J-N., Dec 2017, In : Cell Death and Differentiation. 24, 12, p. 2173-2186 14 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Forskolin-induced Swelling in Intestinal Organoids: An In Vitro Assay for Assessing Drug Response in Cystic Fibrosis Patients

Boj, S. F., Vonk, A. M., Statia, M., Su, J., Vries, R. R. G., Beekman, J. M. & Clevers, H., 11 Feb 2017, In : Journal of Visualized Experiments. 120

Research output: Contribution to journal/periodicalArticleScientificpeer-review

From good to bad: Intravital imaging of the hijack of physiological processes by cancer cells

Suijkerbuijk, S. J. E. & van Rheenen, J., 15 Aug 2017, In : Developmental Biology. 428, 2, p. 328-337 10 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Genetic dissection of colorectal cancer progression by orthotopic transplantation of engineered cancer organoids

Fumagalli, A., Drost, J., Suijkerbuijk, S. J. E., van Boxtel, R., de Ligt, J., Offerhaus, G. J., Begthel, H., Beerling, E., Tan, E. H., Sansom, O. J., Cuppen, E., Clevers, H. & van Rheenen, J., 21 Mar 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 12, p. E2357-E2364

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Genetic Dissection of Morphometric Traits Reveals that Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana

Snoek, B. L., Pavlova, P., Tessadori, F., Peeters, A. J. M., Bourbousse, C., Barneche, F., de Jong, J. H., Fransz, P. F. & van Zanten, M., 07 Jun 2017, In : G3 (Bethesda, Md.).

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Germline mutations affecting the histone H4 core cause a developmental syndrome by altering DNA damage response and cell cycle control

Tessadori, F., Giltay, J. C., Hurst, J. A., Massink, M. P., Duran, K., Vos, H. R., van Es, R. M., Scott, R. H., van Gassen, K. L. I., Bakkers, J. & van Haaften, G., Nov 2017, In : Nature Genetics. 49, 11, p. 1642-1646 5 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Goblet Cells Contribute to Ocular Surface Immune Tolerance-Implications for Dry Eye Disease

Barbosa, F. L., Xiao, Y., Bian, F., Coursey, T. G., Ko, B. Y., Clevers, H., de Paiva, C. S. & Pflugfelder, S. C., 05 May 2017, In : International Journal of Molecular Sciences. 18, 5

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Heterogeneity in kinesin function

Reddy, B. J. N., Tripathy, S., Vershinin, M., Tanenbaum, M. E., Xu, J., Mattson-Hoss, M., Arabi, K., Chapman, D., Doolin, T., Hyeon, C. & Gross, S. P., Oct 2017, In : Traffic. 18, 10, p. 658-671 14 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

How the Gut Feels, Smells, and Talks

Beumer, J. & Clevers, H., 29 Jun 2017, In : Cell. 170, 1, p. 10-11 2 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Hubrecht Institute Centennial - From embryos to stem cells

den Hertog, J. & de Laat, S. W., 15 Aug 2017, In : Developmental Biology. 428, 2, p. 261-263 3 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Human tissues in a dish: The research and ethical implications of organoid technology

Bredenoord, A. L., Clevers, H. & Knoblich, J. A., 20 Jan 2017, In : Science. 355, 6322

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Identity and dynamics of mammary stem cells during branching morphogenesis

Scheele, C. L. G. J., Hannezo, E., Muraro, M. J., Zomer, A., Langedijk, N. S. M., van Oudenaarden, A., Simons, B. D. & van Rheenen, J., 16 Feb 2017, In : Nature. 542, 7641, p. 313-317 5 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Impaired caudal fin-fold regeneration in zebrafish deficient for the tumor suppressor Pten

Hale, A. J., Kiai, A., Sikkens, J. & den Hertog, J., Aug 2017, In : Regeneration. 4, 4, p. 217-226 10 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Increased vimentin in human α- and β-cells in type 2 diabetes

Roefs, M. M., Carlotti, F., Jones, K., Wills, H., Hamilton, A., Verschoor, M., Durkin, J. M. W., Garcia-Perez, L., Brereton, M. F., McCulloch, L., Engelse, M. A., Johnson, P. R. V., Hansen, B. C., Docherty, K., de Koning, E. J. P. & Clark, A., Jun 2017, In : The Journal of endocrinology. 233, 3, p. 217-227 11 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Interrogating open issues in cancer medicine with patient-derived xenografts

Byrne, A. T., Alférez, D. G., Amant, F., Annibali, D., Arribas, J., Biankin, A. V., Bruna, A., Budinská, E., Caldas, C., Chang, D. K., Clarke, R. B., Clevers, H., Coukos, G., Dangles-Marie, V., Eckhardt, S. G., Gonzalez-Suarez, E., Hermans, E., Hidalgo, M., Jarzabek, M. A., de Jong, S. & 22 others, Jonkers, J., Kemper, K., Lanfrancone, L., Mælandsmo, G. M., Marangoni, E., Marine, J-C., Medico, E., Norum, J. H., Palmer, H. G., Peeper, D. S., Pelicci, P. G., Piris-Gimenez, A., Roman-Roman, S., Rueda, O. M., Seoane, J., Serra, V., Soucek, L., Vanhecke, D., Villanueva, A., Vinolo, E., Bertotti, A. & Trusolino, L., 15 Sep 2017, In : Nature reviews. Cancer. 17, 10, p. 632

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Interrogating open issues in cancer precision medicine with patient-derived xenografts

Byrne, A. T., Alférez, D. G., Amant, F., Annibali, D., Arribas, J., Biankin, A. V., Bruna, A., Budinská, E., Caldas, C., Chang, D. K., Clarke, R. B., Clevers, H., Coukos, G., Dangles-Marie, V., Eckhardt, S. G., Gonzalez-Suarez, E., Hermans, E., Hidalgo, M., Jarzabek, M. A., de Jong, S. & 22 others, Jonkers, J., Kemper, K., Lanfrancone, L., Mælandsmo, G. M., Marangoni, E., Marine, J-C., Medico, E., Norum, J. H., Palmer, H. G., Peeper, D. S., Pelicci, P. G., Piris-Gimenez, A., Roman-Roman, S., Rueda, O. M., Seoane, J., Serra, V., Soucek, L., Vanhecke, D., Villanueva, A., Vinolo, E., Bertotti, A. & Trusolino, L., Apr 2017, In : Nature reviews. Cancer. 17, 4, p. 254-268 15 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Intestinal epithelial organoids fuse to form self-organizing tubes in floating collagen gels

Sachs, N., Tsukamoto, Y., Kujala, P., Peters, P. J. & Clevers, H., 15 Mar 2017, In : Development (Cambridge). 144, 6, p. 1107-1112 6 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Intravital imaging of cancer : visualizing the bad guys

Beerling, E., 01 Jun 2017, Utrecht University.

Research output: PhD ThesisPhD thesis

In Vivo Imaging Reveals Existence of Crypt Fission and Fusion in Adult Mouse Intestine

Bruens, L., Ellenbroek, S. I. J., van Rheenen, J. & Snippert, H. J., Sep 2017, In : Gastroenterology. 153, 3, p. 674-677.e3

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Islet cells share promoter hypomethylation independently of expression, but exhibit cell-type-specific methylation in enhancers

Neiman, D., Moss, J., Hecht, M., Magenheim, J., Piyanzin, S., Shapiro, A. M. J., de Koning, E. J. P., Razin, A., Cedar, H., Shemer, R. & Dor, Y., 19 Dec 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 51, p. 13525-13530 6 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Keeping the Rhythm : Cardiac Pacemaker Cell Development

Burkhard, S., 28 Nov 2017, Utrecht University.

Research output: PhD ThesisPhD thesis

Kinetochore Malfunction in Human Pathologies

de Wolf, B. & Kops, G. J. P. L., 2017, In : Advances in Experimental Medicine and Biology. 1002, p. 69-91 23 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Knock-Out Serum Replacement and Melatonin Effects on Germ Cell Differentiation in Murine Testicular Explant Cultures

Reda, A., Albalushi, H., Montalvo, S. C., Nurmio, M., Sahin, Z., Hou, M., Geijsen, N., Toppari, J., Söder, O. & Stukenborg, J-B., Jul 2017, In : Annals of Biomedical Engineering. 45, 7, p. 1783-1794 12 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

KRS: A cut away from release in exosomes

Rabouille, C., 03 Jul 2017, In : Journal of Cell Biology. 216, 7, p. 1891-1893 3 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Layered PEGDA hydrogel for islet of Langerhans encapsulation and improvement of vascularization

Marchioli, G., Zellner, L., Oliveira, C., Engelse, M. A., Koning, E. D., Mano, J., Karperien, M., Apeldoorn, A. V. & Moroni, L., 18 Nov 2017, In : Journal of Materials Science: Materials in Medicine. 28, 12, p. 195

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Lineage-dependent spatial and functional organization of the mammalian enteric nervous system

Lasrado, R., Boesmans, W., Kleinjung, J., Pin, C., Bell, D., Bhaw, L., McCallum, S., Zong, H., Luo, L., Clevers, H., Vanden Berghe, P. & Pachnis, V., 19 May 2017, In : Science. 356, 6339, p. 722-726 5 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Lipid-mediated Wnt protein stabilization enables serum-free culture of human organ stem cells

Tüysüz, N., van Bloois, L., van den Brink, S., Begthel, H., Verstegen, M. M. A., Cruz, L. J., Hui, L., van der Laan, L. J. W., de Jonge, J., Vries, R. R. G., Braakman, E., Mastrobattista, E., Cornelissen, D-J., Clevers, H. & Ten Berge, D., 06 Mar 2017, In : Nature Communications. 8, p. 14578

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Long-Term Adult Feline Liver Organoid Cultures for Disease Modeling of Hepatic Steatosis

Kruitwagen, H. S., Oosterhoff, L. A., Vernooij, I. G. W. H., Schrall, I. M., van Wolferen, M. E., Bannink, F., Roesch, C., van Uden, L., Molenaar, M. R., Helms, J. B., Grinwis, G. C. M., Verstegen, M. M. A., van der Laan, L. J. W., Huch, M., Geijsen, N., Vries, R. G., Clevers, H., Rothuizen, J., Schotanus, B. A., Penning, L. C. & 1 others, Spee, B., 11 Apr 2017, In : Stem Cell Reports. 8, 4, p. 822-830 9 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Loss of the Wnt receptor frizzled 7 in the mouse gastric epithelium is deleterious and triggers rapid repopulation in vivo

Flanagan, D. J., Barker, N., Nowell, C. J., Clevers, H., Ernst, M., Phesse, T. J. & Vincan, E., 01 Aug 2017, In : DMM Disease Models and Mechanisms. 10, 8, p. 971-980 10 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Making the cut: How XPF-ERCC1 unhooks DNA interstrand crosslinks

Klein Douwel, D., 19 Jan 2017, University of Utrecht.

Research output: PhD ThesisPhD thesis

Mechanisms of Spindle Assembly Checkpoint Silencing

Etemad, B., 12 Dec 2017, University of Utrecht.

Research output: PhD ThesisPhD thesis

Membrane-bound organelles versus membrane-less compartments and their control of anabolic pathways in Drosophila

Aguilera-Gomez, A. & Rabouille, C., 15 Aug 2017, In : Developmental Biology. 428, 2, p. 310-317 8 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Mending broken hearts : Cardiac regeneration in zebrafish

kruse, F., 31 Aug 2017, Utrecht University.

Research output: PhD ThesisPhD thesis

Methylation and demethylation dynamics in single cells

Mooijman, D., 18 Apr 2017

Research output: PhD ThesisPhD thesis

MET Signaling Mediates Intestinal Crypt-Villus Development, Regeneration, and Adenoma Formation and Is Promoted by Stem Cell CD44 Isoforms

Joosten, S. P. J., Zeilstra, J., van Andel, H., Mijnals, R. C., Zaunbrecher, J., Duivenvoorden, A. A. M., van de Wetering, M., Clevers, H., Spaargaren, M. & Pals, S. T., Oct 2017, In : Gastroenterology. 153, 4, p. 1040-1053.e4

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Micro-fabricated scaffolds lead to efficient remission of diabetes in mice

Buitinga, M., Assen, F., Hanegraaf, M., Wieringa, P., Hilderink, J., Moroni, L., Truckenmüller, R., van Blitterswijk, C., Römer, G-W., Carlotti, F., de Koning, E., Karperien, M. & van Apeldoorn, A., Aug 2017, In : Biomaterials. 135, p. 10-22 13 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

MicroRNA-146a as a Regulator of Cardiac Energy Metabolism

Demkes, C. J. & van Rooij, E., 22 Aug 2017, In : Circulation. 136, 8, p. 762-764 3 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

MiR-184 expression is regulated by AMPK in pancreatic islets

Martinez-Sanchez, A., Nguyen-Tu, M-S., Cebola, I., Yavari, A., Marchetti, P., Piemonti, L., de Koning, E., Shapiro, A. M. J., Johnson, P., Sakamoto, K., Smith, D. M., Leclerc, I., Ashrafian, H., Ferrer, J. & Rutter, G. A., 21 Dec 2017, In : FASEB Journal.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Mouse Model of Alagille Syndrome and Mechanisms of Jagged1 Missense Mutations

Andersson, E. R., Chivukula, I. V., Hankeova, S., Sjöqvist, M., Tsoi, Y. L., Ramsköld, D., Masek, J., Elmansuri, A., Hoogendoorn, A., Vazquez, E., Storvall, H., Netušilová, J., Huch, M., Fischler, B., Ellis, E., Contreras, A., Nemeth, A., Chien, K. C., Clevers, H., Sandberg, R. & 2 others, Bryja, V. & Lendahl, U., 20 Nov 2017, In : Gastroenterology.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Neonatal rat cardiomyocytes as an in vitro model for circadian rhythms in the heart

du Pré, B. C., Dierickx, P., Crnko, S., Doevendans, P. A., Vos, M. A., Geijsen, N., Neutel, D., van Veen, T. A. B. & van Laake, L. W., Nov 2017, In : Journal of Molecular and Cellular Cardiology. 112, p. 58-63 6 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Oncogene-inducible organoids as a miniature platform to assess cancer characteristics

Mizutani, T., Tsukamoto, Y. & Clevers, H., 05 Jun 2017, In : Journal of Cell Biology. 216, 6, p. 1505-1507 3 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

On the Evolution of the Cardiac Pacemaker

Burkhard, S., van Eif, V., Garric, L., Christoffels, V. M. & Bakkers, J., 27 Apr 2017, In : Journal of Cardiovascular Development and Disease. 4, 2, p. 4 1 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Organoid culture systems to study host-pathogen interactions

Dutta, D. & Clevers, H., Oct 2017, In : Current Opinion in Immunology. 48, p. 15-22 8 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Origins of lymphatic and distant metastases in human colorectal cancer

Naxerova, K., Reiter, J. G., Brachtel, E., Lennerz, J. K., van de Wetering, M., Rowan, A., Cai, T., Clevers, H., Swanton, C., Nowak, M. A., Elledge, S. J. & Jain, R. K., 07 Jul 2017, In : Science. 357, 6346, p. 55-60 6 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Pancreas transplantation with grafts from donors deceased after circulatory death (DCD): 5 years single center experience

Kopp, W. H., Lam, H-D., Schaapherder, A. F. M., Huurman, V. A. L., van der Boog, P., de Koning, E., de Fijter, J. W., Baranski, A. & Braat, A. E., 06 Sep 2017, In : Transplantation.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Pancreatic islet macroencapsulation using microwell porous membranes

Skrzypek, K., Groot Nibbelink, M., van Lente, J., Buitinga, M., Engelse, M. A., de Koning, E. J. P., Karperien, M., van Apeldoorn, A. & Stamatialis, D., 23 Aug 2017, In : Scientific Reports. 7, 1, p. 9186

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Pancreatic α-cell mass in obesity

Ellenbroek, J. H., Töns, H. A. M., Hanegraaf, M. A. J., Rabelink, T. J., Engelse, M. A., Carlotti, F. & de Koning, E. J. P., Dec 2017, In : Diabetes, Obesity and Metabolism. 19, 12, p. 1810-1813 4 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access