• Netherlands

  • Netherlands

Research Output

Article

A positive feedback loop involving Gcm1 and Fzd5 directs chorionic branching morphogenesis in the placenta

Lu, J., Zhang, S., Nakano, H., Simmons, D. G., Wang, S., Kong, S., Wang, Q., Shen, L., Tu, Z., Wang, W., Wang, B., Wang, H., Wang, Y., van Es, J. H., Clevers, H., Leone, G. & Cross, J. C., 2013, In : PLoS Biology. 11, 4, p. 1001536

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Application of exome sequencing in the search for genetic causes of rare disorders of copper metabolism

Fuchs, S. A., Harakalova, M., van Haaften, G., van Hasselt, P. M., Cuppen, E. & Houwen, R. H., 2012, In : Metallomics. 4, 7, p. 606-613

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Application of Gene Expression Trajectories Initiated from ErbB Receptor Activation Highlights the Dynamics of Divergent Promoter Usage

Carbajo, D., Magi, S., Itoh, M., Kawaji, H., Lassmann, T., Arner, E., Forrest, A. R. R., Carninci, P., Hayashizaki, Y., Daub, C. O., Okada-Hatakeyama, M. & Mar, J. C., 2015, In : PLoS One. 10, 12, p. e0144176

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Approaches to microRNA discovery

Cuppen, E., Berezikov, E. & Plasterk, R., 2006, In : Nature Genetics. 38 Suppl, p. 2-7 6 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A practical guide for the identification of membrane and plasma membrane proteins in human embryonic stem cells and human embryonal carcinoma cells.

Dormeyer, W., van Hoof, D., Mummery, C. L., Krijgsveld, J. & Heck, A., 2008, In : Proteomics. 8, 19, p. 4036-4053

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A predictive model of bifunctional transcription factor signaling during embryonic tissue patterning

Junker, J. P., Peterson, K. A., Nishi, Y., Mao, J., McMahon, A. P. & van Oudenaarden, A., 24 Nov 2014, In : Developmental Cell. 31, 4, p. 448-60 13 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A promoter-level mammalian expression atlas

Forrest, A. R. R., Kawaji, H., Rehli, M., Baillie, J. K., de Hoon, M. J. L., Haberle, V., Lassman, T., Kulakovskiy, I. V., Lizio, M., Itoh, M., Andersson, R., Mungall, C. J., Meehan, T. F., Schmeier, S., Bertin, N., Jørgensen, M., Dimont, E., Arner, E., Schmidl, C., Schaefer, U. & 30 others, Medvedeva, Y. A., Plessy, C., Vitezic, M., Severin, J., Semple, C. A., Ishizu, Y., Young, R. S., Francescatto, M., Alam, I., Albanese, D., Altschuler, G. M., Arakawa, T., Archer, J. A. C., Arner, P., Babina, M., Rennie, S., Balwierz, P. J., Beckhouse, A. G., Pradhan-Bhatt, S., Blake, J. A., Blumenthal, A., Bodega, B., Bonetti, A., Briggs, J., Brombacher, F., Burroughs, A. M., Califano, A., Cannistraci, C. V., Clevers, H. C. & Mummery, C. L., 27 Mar 2014, In : Nature. 507, 7493, p. 462-70 9 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A Protein Disulfide Isomerase Controls Neuronal Migration through Regulation of Wnt Secretion

Torpe, N., Gopal, S., Baltaci, O., Rella, L., Handley, A., Korswagen, H. C. & Pocock, R., 19 Mar 2019, In : Cell Reports. 26, 12, p. 3183-3190.e5

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Aquaporin 7: the glycerol aquaeductus in the heart

Gladka, M. M., el Azzouzi, H., de Windt, L. J. & da Costa Martins, P. A., 2009, In : Cardiovascular Research. 83, 1, p. 3-4

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Archaeal DNA on the histone merry-go-round

Bhattacharyya, S., Mattiroli, F. & Luger, K., Sep 2018, In : FEBS Journal. 285, 17, p. 3168-3174 7 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Architectural hallmarks of the pluripotent genome

Bouwman, B. A. M. & de Laat, W., 07 May 2015, In : FEBS Letters.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A rectal cancer organoid platform to study individual responses to chemoradiation

Ganesh, K., Wu, C., O'Rourke, K. P., Szeglin, B. C., Zheng, Y., Sauvé, C-E. G., Adileh, M., Wasserman, I., Marco, M. R., Kim, A. S., Shady, M., Sanchez-Vega, F., Karthaus, W. R., Won, H. H., Choi, S-H., Pelossof, R., Barlas, A., Ntiamoah, P., Pappou, E., Elghouayel, A. & 30 others, Strong, J. S., Chen, C-T., Harris, J. W., Weiser, M. R., Nash, G. M., Guillem, J. G., Wei, I. H., Kolesnick, R. N., Veeraraghavan, H., Ortiz, E. J., Petkovska, I., Cercek, A., Manova-Todorova, K. O., Saltz, L. B., Lavery, J. A., DeMatteo, R. P., Massagué, J., Paty, P. B., Yaeger, R., Chen, X., Patil, S., Clevers, H., Berger, M. F., Lowe, S. W., Shia, J., Romesser, P. B., Dow, L. E., Garcia-Aguilar, J., Sawyers, C. L. & Smith, J. J., Oct 2019, In : Nature Medicine. 25, 10, p. 1607-1614 8 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A regulatory archipelago controls hox genes transcription in digits

Montavon, T., Soshnikova, N., Mascrez, B., Joye, E., Thevenet, L., Splinter, E., de Laat, W., Spitz, F. & Duboule, D., 2011, In : Cell. 147, 5, p. 1132-1145

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A Retrievable, Efficacious Polymeric Scaffold for Subcutaneous Transplantation of Rat Pancreatic Islets

Smink, A. M., Hertsig, D. T., Schwab, L., van Apeldoorn, A. A., de Koning, E., Faas, M. M., de Haan, B. J. & de Vos, P., 15 Jul 2016, In : Journal of refractive surgery (Thorofare, N.J. : 1995).

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Armadillo/beta-catenin signals in the nucleus--proof beyond a reasonable doubt?

Bienz, M. & Clevers, J. C., 2003, In : Nature Cell Biology. 5, p. 179-182

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Armadillo co-activates transcription driven by the product of the Drosophila segment polarity gene dTCF

Wetering, M. V. D., Cavallo, R., Dooijes, D., Beest, M. V., Es, J. V., Loureiro, J., Ypma, A., Hursh, D., Jones, T., Bejsovec, A., Peifer, M., Mortin, M. & Clevers, J. C., 1997, In : Cell. 88, p. 789-799

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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Armadillo takes the APC shuttle

Clevers, J. C., 2000, In : Nature Cell Biology. 2, p. 177-178

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A robust network of double-strand break repair pathways governs genome integrity during C. elegans development.

Pontier, D. B. & Tijsterman, M., 2009, In : Current Biology. 19, 16, p. 1384-1388

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Arteries provide essential guidance cues for lymphatic endothelial cells in the zebrafish trunk

Bussmann, J., Bos, F. L., Urasaki, A., Kawakami, K., Duckers, H. J. & Schulte-Merker, S., 2010, In : Development. 137, 16, p. 2653-2657

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Artificial Pancreas or Novel Beta-Cell Replacement Therapies: a Race for Optimal Glycemic Control?

Nijhoff, M. F. & de Koning, E. J. P., 24 Sep 2018, In : Current Diabetes Reports. 18, 11, p. 110

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

asb11 is a regulator of embryonic and adult regenerative myogenesis

Tee, J. M., Sartori da Silva, M. A., Rygiel, A. M., Muncan, V., Bink, R., van den Brink, G. R., van Tijn, P., Zivkovic, D., Kodach, L. L., Guardavaccaro, D., Diks, S. H. & Peppelenbosch, M. P., 2012, In : Stem Cells and Development. 21, 17, p. 3091-3103

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Ascl2 acts as an R-spondin/Wnt-responsive switch to control stemness in intestinal crypts

Schuijers, J., Junker, J. P., Mokry, M., Hatzis, P., Koo, B-K., Sasselli, V., van der Flier, L. G., Cuppen, E., van Oudenaarden, A. & Clevers, H., 05 Feb 2015, In : Cell Stem Cell. 16, 2, p. 158-70 13 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A Single-Cell RNA Sequencing Study Reveals Cellular and Molecular Dynamics of the Hippocampal Neurogenic Niche

Artegiani, B., Lyubimova, A., Muraro, M. J., van Es, J. H., van Oudenaarden, A. & Clevers, H., 12 Dec 2017, In : Cell Reports. 21, 11, p. 3271-3284 14 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A Single-Cell Transcriptome Atlas of the Human Pancreas

Muraro, M. J., Dharmadhikari, G., Grün, D., Groen, N., Dielen, T., Jansen, E., van Gurp, L., Engelse, M. A., Carlotti, F., de Koning, E. J. P. & van Oudenaarden, A., 26 Oct 2016, In : Cell Systems. 3, 4, p. 385-394.e3

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A single oncogenic enhancer rearrangement causes concomitant EVI1 and GATA2 deregulation in leukemia

Gröschel, S., Sanders, M. A., Hoogenboezem, R., de Wit, E., Bouwman, B. A. M., Erpelinck, C., van der Velden, V. H. J., Havermans, M., Avellino, R., van Lom, K., Rombouts, E. J., van Duin, M., Döhner, K., Beverloo, H. B., Bradner, J. E., Döhner, H., Löwenberg, B., Valk, P. J. M., Bindels, E. M. J., de Laat, W. & 1 others, Delwel, R., 10 Apr 2014, In : Cell. 157, 2, p. 369-81 13 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A SNX3-dependent retromer pathway mediates retrograde transport of the Wnt sorting receptor Wntless and is required for Wnt secretion

Harterink, M., Port, F., Lorenowicz, M. J., McGough, I. J., Silhankova, M., Betist, M. C., van Weering, J. R., van Heesbeen, R. G., Middelkoop, T. C., Basler, K., Cullen, P. J. & Korswagen, H. C., 2011, In : Nature Cell Biology. 13, 8, p. 914-923

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Assessment of PTEN tumor suppressor activity in nonmammalian models: the year of the yeast.

Cid, V. J., Rodriguez-Escudero, I., Andres-Pons, A., Roma-Mateo, C., Gil, A., den Hertog, J., Molina, M. & Pulido, R., 2008, In : Oncogene. 27, 41, p. 5431-5442

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Assessment of the Most Optimal Control Tissue for Intracranial Aneurysm Gene Expression Studies

Laarman, M. D., Kleinloog, R., Bakker, M. K., Rinkel, G. J. E., Bakkers, J. & Ruigrok, Y. M., Oct 2019, In : Stroke. 50, 10, p. 2933-2936 4 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Association between person and disease related factors and the planned diabetes care in people who receive person-centered type 2 diabetes care: An implementation study

van Vugt, H. A., de Koning, E. J. P. & Rutten, G. E. H. M., 2019, In : PLoS One. 14, 7, p. e0219702

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Association of fasting triglyceride concentration and postprandial triglyceride response with the carotid intima-media thickness in the middle aged: The Netherlands Epidemiology of Obesity study

Christen, T., de Mutsert, R., Gast, K. B., Rensen, P. C. N., de Koning, E., Rosendaal, F. R., Trompet, S. & Jukema, J. W., 16 May 2017, In : Journal of Clinical Lipidology. 11, 2, p. 377-385.e1

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Associations of Abdominal Subcutaneous and Visceral Fat with Insulin Resistance and Secretion Differ Between Men and Women: The Netherlands Epidemiology of Obesity Study

de Mutsert, R., Gast, K., Widya, R., de Koning, E., Jazet, I., Lamb, H., le Cessie, S., de Roos, A., Smit, J., Rosendaal, F. & den Heijer, M., Feb 2018, In : Metabolic Syndrome and Related Disorders. 16, 1, p. 54-63 10 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A stress assembly that confers cell viability by preserving ERES components during amino-acid starvation

Zacharogianni, M., Gomez, A. A., Veenendaal, T., Smout, J. & Rabouille, C., 2014, In : eLife. 3

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A study in male and female 5-HT transporter knockout rats: an animal model for anxiety and depression disorders.

Olivier, J., Van Der Hart, M. G. C., Van Swelm, R. P. L., Dederen, P. J., Homberg, J. R., Cremers, T., Deen, P. M. T., Cuppen, E., Cools, A. R. & Ellenbroek, B. A., 2008, In : Neuroscience. 152, 3, p. 573-584

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A systematic genome-wide analysis of zebrafish protein-coding gene function

Kettleborough, R. N., Busch-Nentwich, E. M., Harvey, S. A., Dooley, C. M., de Bruijn, E., van Eeden, F., Sealy, I., White, R. J., Herd, C., Nijman, I. J., Fenyes, F., Mehroke, S., Scahill, C., Gibbons, R., Wali, N., Carruthers, S., Hall, A., Yen, J., Cuppen, E. & Stemple, D. L., 2013, In : Nature. 496, 7446, p. 494-497

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A systems-wide screen identifies substrates of the SCFβTrCP ubiquitin ligase

Low, T. Y., Peng, M., Magliozzi, R., Mohammed, S., Guardavaccaro, D. & Heck, A. J. R., 16 Dec 2014, In : Science Signaling. 7, 356, p. rs8

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Ataxia with loss of Purkinje cells in a mouse model for Refsum disease.

Ferdinandusse, S., Zomer, A. W. M., Komen, J. C., van den Brink, C., Thanos, M., Hamers, F. P. T., Wanders, R. J. A. T., van der Saag, P. T., Poll-The, B. T. & Brites, P., 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 46, p. 17712-17717

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A transcriptomic roadmap to α- and β-cell differentiation in the embryonic pancreas

van Gurp, L., Muraro, M. J., Dielen, T., Seneby, L., Dharmadhikari, G., Gradwohl, G., van Oudenaarden, A. & de Koning, E. J. P., 24 Jun 2019, In : Development (Cambridge). 146, 12

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A transgenic mouse model for "lipid hang-up", or why pathologists need to be involved in genetically engineered mouse modelling

Offerhaus, G. J. A., Milne, A. N. A., Oving, I. M., van Gijn, M. E., Hruban, R. H. & Clevers, H., 2008, In : Gut. 57, p. 1739-1740 1739 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Attachment issues: kinetochore transformations and spindle checkpoint silencing

Etemad, B. & Kops, G. J., Apr 2016, In : Current Opinion in Cell Biology. 39, p. 101-8 8 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

At the base of colinear Hox gene expression: cis-features and trans-factors orchestrating the initial phase of Hox cluster activation

Neijts, R. & Deschamps, J., 15 Aug 2017, In : Developmental Biology. 428, 2, p. 293-299 7 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

At the crossroads of inflammation and cancer

Clevers, J. C., 2004, In : Cell. 17, p. 671-6744

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Atypical E2fs control lymphangiogenesis through transcriptional regulation of Ccbe1 and Flt4

Weijts, B. G., van Impel, A., Schulte-Merker, S. & de Bruin, A., 2013, In : PLoS One. 8, 9, p. 73693

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A unified nomenclature and amino acid numbering for human PTEN

Pulido, R., Baker, S. J., Barata, J. T., Carracedo, A., Cid, V. J., Chin-Sang, I. D., Davé, V., den Hertog, J., Devreotes, P., Eickholt, B. J., Eng, C., Furnari, F. B., Georgescu, M-M., Gericke, A., Hopkins, B., Jiang, X., Lee, S-R., Lösche, M., Malaney, P., Matias-Guiu, X. & 19 others, Molina, M., Pandolfi, P. P., Parsons, R., Pinton, P., Rivas, C., Rocha, R. M., Rodríguez, M. S., Ross, A. H., Serrano, M., Stambolic, V., Stiles, B., Suzuki, A., Tan, S-S., Tonks, N. K., Trotman, L. C., Wolff, N., Woscholski, R., Wu, H. & Leslie, N. R., 01 Jul 2014, In : Science Signaling. 7, 332, p. pe15

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A Unifying Theory of Branching Morphogenesis

Hannezo, E., Scheele, C. L. G. J., Moad, M., Drogo, N., Heer, R., Sampogna, R. V., van Rheenen, J. & Simons, B. D., 21 Sep 2017, In : Cell. 171, 1, p. 242-255.e27

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

AU-rich elements and alternative splicing in the beta-catenin 3'UTR can influence the human beta-catenin mRNA stability.

Thiele, A., Nagamine, Y., Hauschildt, S. & Clevers, J. C., 2006, In : Experimental Cell Research. 312, p. 2367-2378

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Aurora A, MCAK, and Kif18b promote Eg5-independent spindle formation

van Heesbeen, R. G. H. P., Raaijmakers, J. A., Tanenbaum, M. E., Halim, V. A., Lelieveld, D., Lieftink, C., Heck, A. J. R., Egan, D. A. & Medema, R. H., 29 Jun 2016, In : Chromosoma.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

Autoimmunity against a defective ribosomal insulin gene product in type 1 diabetes

Kracht, M. J. L., van Lummel, M., Nikolic, T., Joosten, A. M., Laban, S., van der Slik, A. R., van Veelen, P. A., Carlotti, F., de Koning, E. J. P., Hoeben, R. C., Zaldumbide, A. & Roep, B. O., Apr 2017, In : Nature Medicine. 23, 4, p. 501-507 7 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Automated brightfield morphometry of 3D organoid populations by OrganoSeg

Borten, M. A., Bajikar, S. S., Sasaki, N., Clevers, H. & Janes, K. A., 28 Mar 2018, In : Scientific Reports. 8, 1, p. 5319

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access

A variant in the carboxyl-terminus of connexin 40 alters GAP junctions and increases risk for tetralogy of Fallot

Guida, V., Ferese, R., Rocchetti, M., Bonetti, M., Sarkozy, A., Cecchetti, S., Gelmetti, V., Lepri, F., Copetti, M., Lamorte, G., Cristina Digilio, M., Marino, B., Zaza, A., den Hertog, J., Dallapiccola, B. & De Luca, A., 2013, In : European Journal of Human Genetics. 21, 1, p. 69-75

Research output: Contribution to journal/periodicalArticleScientificpeer-review

A Versatile Biosynthetic Hydrogel Platform for Engineering of Tissue Analogues

Klotz, B. J., Oosterhoff, L. A., Utomo, L., Lim, K. S., Vallmajo-Martin, Q., Clevers, H., Woodfield, T. B. F., Rosenberg, A. J. W. P., Malda, J., Ehrbar, M., Spee, B. & Gawlitta, D., Oct 2019, In : Advanced healthcare materials. 8, 19, p. e1900979

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access