Works by van Boxtel, Ruben

Results: 32

Direct detection of 8-oxo-dG using nanopore sequencing.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-60391-3

By:

Pagès-Gallego, Marc;
van Soest, Daan M. K.;
Besselink, Nicolle J. M.;
Straver, Roy;
Keijer, Janneke P.;
Vermeulen, Carlo;
Marcozzi, Alessio;
van Roosmalen, Markus J.;
van Boxtel, Ruben;
Burgering, Boudewijn M. T.;
Dansen, Tobias B.;
de Ridder, Jeroen

Publication type:

Article

Precancerous liver diseases do not cause increased mutagenesis in liver stem cells.

Published in:

Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02839-y

By:

Nguyen, Luan;
Jager, Myrthe;
Lieshout, Ruby;
de Ruiter, Petra E.;
Locati, Mauro D.;
Besselink, Nicolle;
van der Roest, Bastiaan;
Janssen, Roel;
Boymans, Sander;
de Jonge, Jeroen;
IJzermans, Jan N. M.;
Doukas, Michail;
Verstegen, Monique M. A.;
van Boxtel, Ruben;
van der Laan, Luc J. W.;
Cuppen, Edwin;
Kuijk, Ewart

Publication type:

Article

Megakaryocyte lineage development is controlled by modulation of protein acetylation.

Published in:

PLoS ONE, 2018, v. 13, n. 4, p. 1, doi. 10.1371/journal.pone.0196400

By:

Bartels, Marije;
Govers, Anita;
Polak, Roel;
Vervoort, Stephin;
van Boxtel, Ruben;
Pals, Cornelieke;
Bierings, Marc;
van Solinge, Wouter;
Egberts, Toine;
Nieuwenhuis, Edward;
Mokry, Michal;
Coffer, Paul James

Publication type:

Article

Improved generation of rat gene knockouts by target-selected mutagenesis in mismatch repair-deficient animals.

Published in:

BMC Genomics, 2008, v. 9, p. 1, doi. 10.1186/1471-2164-9-460

By:

van Boxtel, Ruben;
Toonen, Pim W.;
Verheul, Mark;
van Roekel, Henk S.;
Nijman, Isaac J.;
Guryev, Victor;
Cuppen, Edwin

Publication type:

Article

Sequential cancer mutations in cultured human intestinal stem cells.

Published in:

Nature, 2015, v. 521, n. 7550, p. 43, doi. 10.1038/nature14415

By:

Drost, Jarno;
van Jaarsveld, Richard H.;
Ponsioen, Bas;
Zimberlin, Cheryl;
van Boxtel, Ruben;
Buijs, Arjan;
Sachs, Norman;
Overmeer, René M.;
Offerhaus, G. Johan;
Begthel, Harry;
Korving, Jeroen;
van de Wetering, Marc;
Schwank, Gerald;
Logtenberg, Meike;
Cuppen, Edwin;
Snippert, Hugo J.;
Medema, Jan Paul;
Kops, Geert J. P. L.;
Clevers, Hans

Publication type:

Article

SOX4 Mediates TGF-β-Induced Expression of Mesenchymal Markers during Mammary Cell Epithelial to Mesenchymal Transition.

Published in:

PLoS ONE, 2013, v. 8, n. 1, p. 1, doi. 10.1371/journal.pone.0053238

By:

Vervoort, Stephin J.;
Lourenço, Ana Rita;
van Boxtel, Ruben;
Coffer, Paul J.

Publication type:

Article

Genome-wide analysis of FOXO3 mediated transcription regulation through RNA polymerase II profiling.

Published in:

Molecular Systems Biology, 2013, v. 9, n. 1, p. 1, doi. 10.1038/msb.2012.74

By:

Eijkelenboom, Astrid;
Mokry, Michal;
de Wit, Elzo;
Smits, Lydia M;
Polderman, Paulien E;
van Triest, Miranda H;
van Boxtel, Ruben;
Schulze, Almut;
de Laat, Wouter;
Cuppen, Edwin;
Burgering, Boudewijn M T

Publication type:

Article

Sister chromatid exchanges induced by perturbed replication can form independently of BRCA1, BRCA2 and RAD51.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-34519-8

By:

Heijink, Anne Margriet;
Stok, Colin;
Porubsky, David;
Manolika, Eleni Maria;
de Kanter, Jurrian K.;
Kok, Yannick P.;
Everts, Marieke;
de Boer, H. Rudolf;
Audrey, Anastasia;
Bakker, Femke J.;
Wierenga, Elles;
Tijsterman, Marcel;
Guryev, Victor;
Spierings, Diana C. J.;
Knipscheer, Puck;
van Boxtel, Ruben;
Ray Chaudhuri, Arnab;
Lansdorp, Peter M.;
van Vugt, Marcel A. T. M.

Publication type:

Article

Sister chromatid exchanges induced by perturbed replication can form independently of BRCA1, BRCA2 and RAD51.

Published in:

Nature Communications, 2022, v. 13, p. 1, doi. 10.1038/s41467-022-34519-8

By:

Heijink, Anne Margriet;
Stok, Colin;
Porubsky, David;
Manolika, Eleni Maria;
de Kanter, Jurrian K.;
Kok, Yannick P.;
Everts, Marieke;
de Boer, H. Rudolf;
Audrey, Anastasia;
Bakker, Femke J.;
Wierenga, Elles;
Tijsterman, Marcel;
Guryev, Victor;
Spierings, Diana C. J.;
Knipscheer, Puck;
van Boxtel, Ruben;
Ray Chaudhuri, Arnab;
Lansdorp, Peter M.;
van Vugt, Marcel A. T. M.

Publication type:

Article

Evaluating CRISPR-based prime editing for cancer modeling and CFTR repair in organoids.

Published in:

Life Science Alliance, 2021, v. 4, n. 10, p. 1, doi. 10.26508/lsa.202000940

By:

Geurts, Maarten H.;
de Poel, Eyleen;
Pleguezuelos-Manzano, Cayetano;
Oka, Rurika;
Carrillo, Leo;
Andersson-Rolf, Amanda;
Boretto, Matteo;
Brunsveld, Jesse E.;
van Boxtel, Ruben;
Beekman, Jeffrey M.;
Clevers, Hans

Publication type:

Article

Mutation accumulation and developmental lineages in normal and Down syndrome human fetal haematopoiesis.

Published in:

Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-69822-1

By:

Hasaart, Karlijn A. L.;
Manders, Freek;
van der Hoorn, Marie-Louise;
Verheul, Mark;
Poplonski, Tomasz;
Kuijk, Ewart;
de Sousa Lopes, Susana M. Chuva;
van Boxtel, Ruben

Publication type:

Article

The Mutagenic Impact of Environmental Exposures in Human Cells and Cancer: Imprints Through Time.

Published in:

Frontiers in Genetics, 2021, v. 12, p. 1, doi. 10.3389/fgene.2021.760039

By:

Rosendahl Huber, Axel;
Van Hoeck, Arne;
Van Boxtel, Ruben

Publication type:

Article

Prime editing for functional repair in patient-derived disease models.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19136-7

By:

Schene, Imre F.;
Joore, Indi P.;
Oka, Rurika;
Mokry, Michal;
van Vugt, Anke H. M.;
van Boxtel, Ruben;
van der Doef, Hubert P. J.;
van der Laan, Luc J. W.;
Verstegen, Monique M. A.;
van Hasselt, Peter M.;
Nieuwenhuis, Edward E. S.;
Fuchs, Sabine A.

Publication type:

Article

Publisher Correction: The mutational impact of culturing human pluripotent and adult stem cells.

Published in:

2020

By:

Kuijk, Ewart;
Jager, Myrthe;
van der Roest, Bastiaan;
Locati, Mauro D.;
Van Hoeck, Arne;
Korzelius, Jerome;
Janssen, Roel;
Besselink, Nicolle;
Boymans, Sander;
van Boxtel, Ruben;
Cuppen, Edwin

Publication type:

Correction Notice

The mutational impact of culturing human pluripotent and adult stem cells.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-020-16323-4

By:

Kuijk, Ewart;
Jager, Myrthe;
van der Roest, Bastiaan;
Locati, Mauro D.;
Van Hoeck, Arne;
Korzelius, Jerome;
Janssen, Roel;
Besselink, Nicolle;
Boymans, Sander;
van Boxtel, Ruben;
Cuppen, Edwin

Publication type:

Article

Genomic landscape of rat strain and substrain variation.

Published in:

BMC Genomics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12864-015-1594-1

By:

Hermsen, Roel;
de Ligt, Joep;
Spee, Wim;
Blokzijl, Francis;
Schäfer, Sebastian;
Adami, Eleonora;
Boymans, Sander;
Flink, Stephen;
van Boxtel, Ruben;
van der Weide, Robin H.;
Aitman, Tim;
Hübner, Norbert;
Simonis, Marieke;
Tabakoff, Boris;
Guryev, Victor;
Cuppen, Edwin

Publication type:

Article

Portrait of a cancer: mutational signature analyses for cancer diagnostics.

Published in:

2019

By:

Van Hoeck, Arne;
Tjoonk, Niels H.;
van Boxtel, Ruben;
Cuppen, Edwin

Publication type:

journal article

Mutation discovery by targeted genomic enrichment of multiplexed barcoded samples.

Published in:

Nature Methods, 2010, v. 7, n. 11, p. 913, doi. 10.1038/nmeth.1516

By:

Nijman, Isaäc J.;
Mokry, Michal;
van Boxtel, Ruben;
Toonen, Pim;
de Bruijn, Ewart;
Cuppen, Edwin

Publication type:

Article

Efficient and error-free fluorescent gene tagging in human organoids without double-strand DNA cleavage.

Published in:

PLoS Biology, 2022, v. 20, n. 1, p. 1, doi. 10.1371/journal.pbio.3001527

By:

Bollen, Yannik;
Hageman, Joris H.;
van Leenen, Petra;
Derks, Lucca L. M.;
Ponsioen, Bas;
Buissant des Amorie, Julian R.;
Verlaan-Klink, Ingrid;
van den Bos, Myrna;
Terstappen, Leon W. M. M.;
van Boxtel, Ruben;
Snippert, Hugo J. G.

Publication type:

Article

Forkhead Box P Family Members at the Crossroad Between Tolerance and Immunity: A Balancing Act.

Published in:

International Reviews of Immunology, 2014, v. 33, n. 2, p. 94, doi. 10.3109/08830185.2013.816698

By:

Fleskens, Veerle;
van Boxtel, Ruben

Publication type:

Article

Melanocortin Receptor 4 Deficiency Affects Body Weight Regulation, Grooming Behavior, and Substrate Preference in the Rat.

Published in:

Obesity (19307381), 2012, v. 20, n. 3, p. 612, doi. 10.1038/oby.2011.81

By:

Mul, Joram D.;
van Boxtel, Ruben;
Bergen, Dylan J.M.;
Brans, Maike A.D.;
Brakkee, Jan H.;
Toonen, Pim W.;
Garner, Keith M.;
Adan, Roger A.H.;
Cuppen, Edwin

Publication type:

Article

Polyketide synthase positive Escherichia coli one‐time measurement in stool is not informative of colorectal cancer risk in a screening setting.

Published in:

Journal of Pathology, 2024, v. 263, n. 2, p. 217, doi. 10.1002/path.6276

By:

de Klaver, Willemijn;
de Wit, Meike;
Bolijn, Anne;
Tijssen, Marianne;
Delis‐van Diemen, Pien;
Lemmens, Margriet;
Spaander, Manon CW;
Dekker, Evelien;
van Leerdam, Monique E;
Coupé, Veerle MH;
van Boxtel, Ruben;
Clevers, Hans;
Carvalho, Beatriz;
Meijer, Gerrit A

Publication type:

Article

Lack of DNA mismatch repair protein MSH6 in the rat results in hereditary non-polyposis colorectal cancer-like tumorigenesis.

Published in:

Carcinogenesis, 2008, v. 29, n. 6, p. 1290, doi. 10.1093/carcin/bgn094

By:

Ruben van Boxtel;
Pim W. Toonen;
Henk S. van Roekel;
Mark Verheul;
Bart M. G. Smits;
Jeroen Korving;
Alain de Bruin;
Edwin Cuppen

Publication type:

Article

Selective pressures of platinum compounds shape the evolution of therapy-related myeloid neoplasms.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-50384-z

By:

Bertrums, Eline J. M.;
de Kanter, Jurrian K.;
Derks, Lucca L. M.;
Verheul, Mark;
Trabut, Laurianne;
van Roosmalen, Markus J.;
Hasle, Henrik;
Antoniou, Evangelia;
Reinhardt, Dirk;
Dworzak, Michael N.;
Mühlegger, Nora;
van den Heuvel-Eibrink, Marry M.;
Zwaan, C. Michel;
Goemans, Bianca F.;
van Boxtel, Ruben

Publication type:

Article

Mitochondrial H<sub>2</sub>O<sub>2</sub> release does not directly cause damage to chromosomal DNA.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-47008-x

By:

van Soest, Daan M. K.;
Polderman, Paulien E.;
den Toom, Wytze T. F.;
Keijer, Janneke P.;
van Roosmalen, Markus J.;
Leyten, Tim M. F.;
Lehmann, Johannes;
Zwakenberg, Susan;
De Henau, Sasha;
van Boxtel, Ruben;
Burgering, Boudewijn M. T.;
Dansen, Tobias B.

Publication type:

Article

One-step generation of tumor models by base editor multiplexing in adult stem cell-derived organoids.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-40701-3

By:

Geurts, Maarten H.;
Gandhi, Shashank;
Boretto, Matteo G.;
Akkerman, Ninouk;
Derks, Lucca L. M.;
van Son, Gijs;
Celotti, Martina;
Harshuk-Shabso, Sarina;
Peci, Flavia;
Begthel, Harry;
Hendriks, Delilah;
Schürmann, Paul;
Andersson-Rolf, Amanda;
Chuva de Sousa Lopes, Susana M.;
van Es, Johan H.;
van Boxtel, Ruben;
Clevers, Hans

Publication type:

Article

MutationalPatterns: comprehensive genome-wide analysis of mutational processes.

Published in:

Genome Medicine, 2018, v. 10, n. 1, p. N.PAG, doi. 10.1186/s13073-018-0539-0

By:

Blokzijl, Francis;
Janssen, Roel;
van Boxtel, Ruben;
Cuppen, Edwin

Publication type:

Article

Measuring mutation accumulation in single human adult stem cells by whole-genome sequencing of organoid cultures.

Published in:

Nature Protocols, 2018, v. 13, n. 1, p. 59, doi. 10.1038/nprot.2017.111

By:

Jager, Myrthe;
Blokzijl, Francis;
Sasselli, Valentina;
Boymans, Sander;
Janssen, Roel;
Besselink, Nicolle;
Clevers, Hans;
van Boxtel, Ruben;
Cuppen, Edwin

Publication type:

Article

Genome sequencing of normal cells reveals developmental lineages and mutational processes.

Published in:

Nature, 2014, v. 513, n. 7518, p. 422, doi. 10.1038/nature13448

By:

Behjati, Sam;
Huch, Meritxell;
van Boxtel, Ruben;
Karthaus, Wouter;
Wedge, David C.;
Martincorena, Iñigo;
Petljak, Mia;
Alexandrov, Ludmil B.;
Gundem, Gunes;
Tarpey, Patrick S.;
Roerink, Sophie;
Maddison, Mark;
Mudie, Laura;
Robinson, Ben;
Campbell, Peter;
Stratton, Michael R.;
Tamuri, Asif U.;
Goldman, Nick;
Blokker, Joyce;
van de Wetering, Marc

Publication type:

Article

Different responses to DNA damage determine ageing differences between organs.

Published in:

Aging Cell, 2022, v. 21, n. 4, p. 1, doi. 10.1111/acel.13562

By:

Vougioukalaki, Maria;
Demmers, Joris;
Vermeij, Wilbert P.;
Baar, Marjolein;
Bruens, Serena;
Magaraki, Aristea;
Kuijk, Ewart;
Jager, Myrthe;
Merzouk, Sarra;
Brandt, Renata M.C.;
Kouwenberg, Janneke;
van Boxtel, Ruben;
Cuppen, Edwin;
Pothof, Joris;
Hoeijmakers, Jan H. J.

Publication type:

Article

Modulation of glutamine metabolism by the PI(3)K-PKB-FOXO network regulates autophagy.

Published in:

Nature Cell Biology, 2012, v. 14, n. 8, p. 829, doi. 10.1038/ncb2536

By:

van der Vos, Kristan E.;
Eliasson, Pernilla;
Proikas-Cezanne, Tassula;
Vervoort, Stephin J.;
van Boxtel, Ruben;
Putker, Marrit;
van Zutphen, Iris J.;
Mauthe, Mario;
Zellmer, Sebastian;
Pals, Cornelieke;
Verhagen, Liesbeth P.;
Groot Koerkamp, Marian J. A.;
Braat, A. Koen;
Dansen, Tobias B.;
Holstege, Frank C.;
Gebhardt, Rolf;
Burgering, Boudewijn M.;
Coffer, Paul J.

Publication type:

Article

Tubuloids derived from human adult kidney and urine for personalized disease modeling.

Published in:

Nature Biotechnology, 2019, v. 37, n. 3, p. 303, doi. 10.1038/s41587-019-0048-8

By:

Schutgens, Frans;
Rookmaaker, Maarten B;
Margaritis, Thanasis;
Rios, Anne;
Ammerlaan, Carola;
Jansen, Jitske;
Gijzen, Linda;
Vormann, Marianne;
Vonk, Annelotte;
Viveen, Marco;
Yengej, Fjodor Yousef;
Derakhshan, Sepide;
de Winter-de Groot, Karin M.;
Artegiani, Benedetta;
van Boxtel, Ruben;
Cuppen, Edwin;
Hendrickx, Antoni P. A.;
van den Heuvel-Eibrink, Marry M.;
Heitzer, Ellen;
Lanz, Henriette

Publication type:

Article