Partner independent fusion gene detection by multiplexed CRISPR-Cas9 enrichment and long read nanopore sequencing
Stangl, Christina, de Blank, Sam, Renkens, Ivo, Westera, Liset, Verbeek, Tamara, Valle-Inclan, Jose Espejo, González, Rocio Chamorro, Henssen, Anton G., van Roosmalen, Markus J., Stam, Ronald W., Voest, Emile E., Kloosterman, Wigard P., van Haaften, Gijs, Monroe, Glen R.
Published in Nature communications (05.06.2020)
Published in Nature communications (05.06.2020)
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Micronuclei-based model system reveals functional consequences of chromothripsis in human cells
Kneissig, Maja, Keuper, Kristina, de Pagter, Mirjam S, van Roosmalen, Markus J, Martin, Jana, Otto, Hannah, Passerini, Verena, Campos Sparr, Aline, Renkens, Ivo, Kropveld, Fenna, Vasudevan, Anand, Sheltzer, Jason M, Kloosterman, Wigard P, Storchova, Zuzana
Published in eLife (28.11.2019)
Published in eLife (28.11.2019)
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A Systematic Analysis of Oncogenic Gene Fusions in Primary Colon Cancer
Kloosterman, Wigard P, Coebergh van den Braak, Robert R J, Pieterse, Mark, van Roosmalen, Markus J, Sieuwerts, Anieta M, Stangl, Christina, Brunekreef, Ronne, Lalmahomed, Zarina S, Ooft, Salo, van Galen, Anne, Smid, Marcel, Lefebvre, Armel, Zwartkruis, Fried, Martens, John W M, Foekens, John A, Biermann, Katharina, Koudijs, Marco J, Ijzermans, Jan N M, Voest, Emile E
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Published in Cancer research (Chicago, Ill.) (15.07.2017)
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Chromothripsis in Healthy Individuals Affects Multiple Protein-Coding Genes and Can Result in Severe Congenital Abnormalities in Offspring
de Pagter, Mirjam S., van Roosmalen, Markus J., Baas, Annette F., Renkens, Ivo, Duran, Karen J., van Binsbergen, Ellen, Tavakoli-Yaraki, Masoumeh, Hochstenbach, Ron, van der Veken, Lars T., Cuppen, Edwin, Kloosterman, Wigard P.
Published in American journal of human genetics (02.04.2015)
Published in American journal of human genetics (02.04.2015)
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Constitutional Chromothripsis Rearrangements Involve Clustered Double-Stranded DNA Breaks and Nonhomologous Repair Mechanisms
Kloosterman, Wigard P., Tavakoli-Yaraki, Masoumeh, van Roosmalen, Markus J., van Binsbergen, Ellen, Renkens, Ivo, Duran, Karen, Ballarati, Lucia, Vergult, Sarah, Giardino, Daniela, Hansson, Kerstin, Ruivenkamp, Claudia A.L., Jager, Myrthe, van Haeringen, Arie, Ippel, Elly F., Haaf, Thomas, Passarge, Eberhard, Hochstenbach, Ron, Menten, Björn, Larizza, Lidia, Guryev, Victor, Poot, Martin, Cuppen, Edwin
Published in Cell reports (Cambridge) (28.06.2012)
Published in Cell reports (Cambridge) (28.06.2012)
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MutationalPatterns: the one stop shop for the analysis of mutational processes
Manders, Freek, Brandsma, Arianne M, de Kanter, Jurrian, Verheul, Mark, Oka, Rurika, van Roosmalen, Markus J, van der Roest, Bastiaan, van Hoeck, Arne, Cuppen, Edwin, van Boxtel, Ruben
Published in BMC genomics (15.02.2022)
Published in BMC genomics (15.02.2022)
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An organoid platform for ovarian cancer captures intra- and interpatient heterogeneity
Kopper, Oded, de Witte, Chris J., Lõhmussaar, Kadi, Valle-Inclan, Jose Espejo, Hami, Nizar, Kester, Lennart, Balgobind, Anjali Vanita, Korving, Jeroen, Proost, Natalie, Begthel, Harry, van Wijk, Lise M., Revilla, Sonia Aristín, Theeuwsen, Rebecca, van de Ven, Marieke, van Roosmalen, Markus J., Ponsioen, Bas, Ho, Victor W. H., Neel, Benjamin G., Bosse, Tjalling, Gaarenstroom, Katja N., Vrieling, Harry, Vreeswijk, Maaike P. G., van Diest, Paul J., Witteveen, Petronella O., Jonges, Trudy, Bos, Johannes L., van Oudenaarden, Alexander, Zweemer, Ronald P., Snippert, Hugo J. G., Kloosterman, Wigard P., Clevers, Hans
Published in Nature medicine (01.05.2019)
Published in Nature medicine (01.05.2019)
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Mapping and phasing of structural variation in patient genomes using nanopore sequencing
Cretu Stancu, Mircea, van Roosmalen, Markus J., Renkens, Ivo, Nieboer, Marleen M., Middelkamp, Sjors, de Ligt, Joep, Pregno, Giulia, Giachino, Daniela, Mandrile, Giorgia, Espejo Valle-Inclan, Jose, Korzelius, Jerome, de Bruijn, Ewart, Cuppen, Edwin, Talkowski, Michael E., Marschall, Tobias, de Ridder, Jeroen, Kloosterman, Wigard P.
Published in Nature communications (06.11.2017)
Published in Nature communications (06.11.2017)
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A multi-platform reference for somatic structural variation detection
Espejo Valle-Inclan, Jose, Besselink, Nicolle J.M., de Bruijn, Ewart, Cameron, Daniel L., Ebler, Jana, Kutzera, Joachim, van Lieshout, Stef, Marschall, Tobias, Nelen, Marcel, Priestley, Peter, Renkens, Ivo, Roemer, Margaretha G.M., van Roosmalen, Markus J., Wenger, Aaron M., Ylstra, Bauke, Fijneman, Remond J.A., Kloosterman, Wigard P., Cuppen, Edwin
Published in Cell genomics (08.06.2022)
Published in Cell genomics (08.06.2022)
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Identification of human D lactate dehydrogenase deficiency
Monroe, Glen R., van Eerde, Albertien M., Tessadori, Federico, Duran, Karen J., Savelberg, Sanne M. C., van Alfen, Johanna C., Terhal, Paulien A., van der Crabben, Saskia N., Lichtenbelt, Klaske D., Fuchs, Sabine A., Gerrits, Johan, van Roosmalen, Markus J., van Gassen, Koen L., van Aalderen, Mirjam, Koot, Bart G., Oostendorp, Marlies, Duran, Marinus, Visser, Gepke, de Koning, Tom J., Calì, Francesco, Bosco, Paolo, Geleijns, Karin, de Sain-van der Velden, Monique G. M., Knoers, Nine V., Bakkers, Jeroen, Verhoeven-Duif, Nanda M., van Haaften, Gijs, Jans, Judith J.
Published in Nature communications (01.04.2019)
Published in Nature communications (01.04.2019)
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Mitochondrial H2O2 release does not directly cause damage to chromosomal DNA
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.
Published in Nature communications (28.03.2024)
Published in Nature communications (28.03.2024)
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Selective pressures of platinum compounds shape the evolution of therapy-related myeloid neoplasms
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
Published in Nature communications (17.07.2024)
Published in Nature communications (17.07.2024)
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Chromothripsis is a common mechanism driving genomic rearrangements in primary and metastatic colorectal cancer
Kloosterman, Wigard P, Hoogstraat, Marlous, Paling, Oscar, Tavakoli-Yaraki, Masoumeh, Renkens, Ivo, Vermaat, Joost S, van Roosmalen, Markus J, van Lieshout, Stef, Nijman, Isaac J, Roessingh, Wijnand, van’t Slot, Ruben, van de Belt, José, Guryev, Victor, Koudijs, Marco, Voest, Emile, Cuppen, Edwin
Published in Genome Biology (19.10.2011)
Published in Genome Biology (19.10.2011)
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Genomic and transcriptomic plasticity in treatment-naive ovarian cancer
Hoogstraat, Marlous, de Pagter, Mirjam S, Cirkel, Geert A, van Roosmalen, Markus J, Harkins, Timothy T, Duran, Karen, Kreeftmeijer, Jennifer, Renkens, Ivo, Witteveen, Petronella O, Lee, Clarence C, Nijman, Isaac J, Guy, Tanisha, van 't Slot, Ruben, Jonges, Trudy N, Lolkema, Martijn P, Koudijs, Marco J, Zweemer, Ronald P, Voest, Emile E, Cuppen, Edwin, Kloosterman, Wigard P
Published in Genome research (01.02.2014)
Published in Genome research (01.02.2014)
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Optimizing Nanopore sequencing-based detection of structural variants enables individualized circulating tumor DNA-based disease monitoring in cancer patients
Valle-Inclan, Jose Espejo, Stangl, Christina, de Jong, Anouk C, van Dessel, Lisanne F, van Roosmalen, Markus J, Helmijr, Jean C A, Renkens, Ivo, Janssen, Roel, de Blank, Sam, de Witte, Chris J, Martens, John W M, Jansen, Maurice P H M, Lolkema, Martijn P, Kloosterman, Wigard P
Published in Genome medicine (18.05.2021)
Published in Genome medicine (18.05.2021)
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Prioritization of genes driving congenital phenotypes of patients with de novo genomic structural variants
Middelkamp, Sjors, Vlaar, Judith M, Giltay, Jacques, Korzelius, Jerome, Besselink, Nicolle, Boymans, Sander, Janssen, Roel, de la Fonteijne, Lisanne, van Binsbergen, Ellen, van Roosmalen, Markus J, Hochstenbach, Ron, Giachino, Daniela, Talkowski, Michael E, Kloosterman, Wigard P, Cuppen, Edwin
Published in Genome medicine (04.12.2019)
Published in Genome medicine (04.12.2019)
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Comprehensive single-cell genome analysis at nucleotide resolution using the PTA Analysis Toolbox
Middelkamp, Sjors, Manders, Freek, Peci, Flavia, van Roosmalen, Markus J., González, Diego Montiel, Bertrums, Eline J.M., van der Werf, Inge, Derks, Lucca L.M., Groenen, Niels M., Verheul, Mark, Trabut, Laurianne, Pleguezuelos-Manzano, Cayetano, Brandsma, Arianne M., Antoniou, Evangelia, Reinhardt, Dirk, Bierings, Marc, Belderbos, Mirjam E., van Boxtel, Ruben
Published in Cell genomics (13.09.2023)
Published in Cell genomics (13.09.2023)
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Human induced pluripotent stem cells display a similar mutation burden as embryonic pluripotent cells in vivo
Hasaart, Karlijn A.L., Manders, Freek, Ubels, Joske, Verheul, Mark, van Roosmalen, Markus J., Groenen, Niels M., Oka, Rurika, Kuijk, Ewart, Lopes, Susana M. Chuva de Sousa, Boxtel, Ruben van
Published in iScience (18.02.2022)
Published in iScience (18.02.2022)
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Genomic and Functional Overlap between Somatic and Germline Chromosomal Rearrangements
van Heesch, Sebastiaan, Simonis, Marieke, van Roosmalen, Markus J., Pillalamarri, Vamsee, Brand, Harrison, Kuijk, Ewart W., de Luca, Kim L., Lansu, Nico, Braat, A. Koen, Menelaou, Androniki, Hao, Wensi, Korving, Jeroen, Snijder, Simone, van der Veken, Lars T., Hochstenbach, Ron, Knegt, Alida C., Duran, Karen, Renkens, Ivo, Alekozai, Najla, Jager, Myrthe, Vergult, Sarah, Menten, Björn, de Bruijn, Ewart, Boymans, Sander, Ippel, Elly, van Binsbergen, Ellen, Talkowski, Michael E., Lichtenbelt, Klaske, Cuppen, Edwin, Kloosterman, Wigard P.
Published in Cell reports (Cambridge) (24.12.2014)
Published in Cell reports (Cambridge) (24.12.2014)
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Transient Differentiation-State Plasticity Occurs during Acute Lymphoblastic Leukemia Initiation
Poort, Vera M, Hagelaar, Rico, van Roosmalen, Markus J, Trabut, Laurianne, Buijs-Gladdines, Jessica G C A M, van Wijk, Bram, Meijerink, Jules, van Boxtel, Ruben
Published in Cancer research (Chicago, Ill.) (15.08.2024)
Published in Cancer research (Chicago, Ill.) (15.08.2024)
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