Search Results - "Boymans, Sander"

The mutational impact of culturing human pluripotent and adult stem cells 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

“…Genetic changes acquired during in vitro culture pose a risk for the successful application of stem cells in regenerative medicine. To assess the genetic risks…”
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5-Fluorouracil treatment induces characteristic T>G mutations in human cancer by Christensen, Sharon, Van der Roest, Bastiaan, Besselink, Nicolle, Janssen, Roel, Boymans, Sander, Martens, John W. M., Yaspo, Marie-Laure, Priestley, Peter, Kuijk, Ewart, Cuppen, Edwin, Van Hoeck, Arne

“…5-Fluorouracil (5-FU) is a chemotherapeutic drug commonly used for the treatment of solid cancers. It is proposed that 5-FU interferes with nucleotide…”
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Functional Repair of CFTR by CRISPR/Cas9 in Intestinal Stem Cell Organoids of Cystic Fibrosis Patients by Schwank, Gerald, Koo, Bon-Kyoung, Sasselli, Valentina, Dekkers, Johanna F., Heo, Inha, Demircan, Turan, Sasaki, Nobuo, Boymans, Sander, Cuppen, Edwin, van der Ent, Cornelis K., Nieuwenhuis, Edward E.S., Beekman, Jeffrey M., Clevers, Hans

“…Single murine and human intestinal stem cells can be expanded in culture over long time periods as genetically and phenotypically stable epithelial organoids…”
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The genome-wide mutational consequences of DNA hypomethylation by Besselink, Nicolle, Keijer, Janneke, Vermeulen, Carlo, Boymans, Sander, de Ridder, Jeroen, van Hoeck, Arne, Cuppen, Edwin, Kuijk, Ewart

“…DNA methylation is important for establishing and maintaining cell identity and for genomic stability. This is achieved by regulating the accessibility of…”
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Extensive localization of long noncoding RNAs to the cytosol and mono- and polyribosomal complexes by van Heesch, Sebastiaan, van Iterson, Maarten, Jacobi, Jetse, Boymans, Sander, Essers, Paul B, de Bruijn, Ewart, Hao, Wensi, MacInnes, Alyson W, Cuppen, Edwin, Simonis, Marieke

“…BACKGROUND: Long noncoding RNAs (lncRNAs) form an abundant class of transcripts, but the function of the majority of them remains elusive. While it has been…”
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Publisher Correction: The mutational impact of culturing human pluripotent and adult stem cells 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

“…An amendment to this paper has been published and can be accessed via a link at the top of the paper…”
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Genomic landscape of rat strain and substrain variation 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

“…Since the completion of the rat reference genome in 2003, whole-genome sequencing data from more than 40 rat strains have become available. These data…”
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Prioritization of genes driving congenital phenotypes of patients with de novo genomic structural variants by 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

“…Genomic structural variants (SVs) can affect many genes and regulatory elements. Therefore, the molecular mechanisms driving the phenotypes of patients…”
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Precancerous liver diseases do not cause increased mutagenesis in liver stem cells 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

“…Inflammatory liver disease increases the risk of developing primary liver cancer. The mechanism through which liver disease induces tumorigenesis remains…”
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Early divergence of mutational processes in human fetal tissues by Kuijk, Ewart, Blokzijl, Francis, Jager, Myrthe, Besselink, Nicolle, Boymans, Sander, Chuva de Sousa Lopes, Susana M, van Boxtel, Ruben, Cuppen, Edwin

“…A developing human fetus needs to balance rapid cellular expansion with maintaining genomic stability. Here, we accurately quantified and characterized somatic…”
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Genomic and Functional Overlap between Somatic and Germline Chromosomal Rearrangements by 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.

“…Genomic rearrangements are a common cause of human congenital abnormalities. However, their origin and consequences are poorly understood. We performed…”
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Measuring mutation accumulation in single human adult stem cells by whole-genome sequencing of organoid cultures by Jager, Myrthe, Blokzijl, Francis, Sasselli, Valentina, Boymans, Sander, Janssen, Roel, Besselink, Nicolle, Clevers, Hans, van Boxtel, Ruben, Cuppen, Edwin

“…This protocol describes a method for cataloging genome-wide mutations that accumulated during life or culture in single adult stem cells of different human…”
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Tissue-specific mutation accumulation in human adult stem cells during life by Blokzijl, Francis, de Ligt, Joep, Jager, Myrthe, Sasselli, Valentina, Roerink, Sophie, Sasaki, Nobuo, Huch, Meritxell, Boymans, Sander, Kuijk, Ewart, Prins, Pjotr, Nijman, Isaac J., Martincorena, Inigo, Mokry, Michal, Wiegerinck, Caroline L., Middendorp, Sabine, Sato, Toshiro, Schwank, Gerald, Nieuwenhuis, Edward E. S., Verstegen, Monique M. A., van der Laan, Luc J. W., de Jonge, Jeroen, IJzermans, Jan N. M., Vries, Robert G., van de Wetering, Marc, Stratton, Michael R., Clevers, Hans, Cuppen, Edwin, van Boxtel, Ruben

“…Stem cells of the liver, colon and small intestine gradually accumulate mutations throughout life at a similar rate even though cancer incidence varies greatly…”
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Deficiency of nucleotide excision repair is associated with mutational signature observed in cancer by Jager, Myrthe, Blokzijl, Francis, Kuijk, Ewart, Bertl, Johanna, Vougioukalaki, Maria, Janssen, Roel, Besselink, Nicolle, Boymans, Sander, de Ligt, Joep, Pedersen, Jakob Skou, Hoeijmakers, Jan, Pothof, Joris, van Boxtel, Ruben, Cuppen, Edwin

“…Nucleotide excision repair (NER) is one of the main DNA repair pathways that protect cells against genomic damage. Disruption of this pathway can contribute to…”
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Reconstructing single-cell karyotype alterations in colorectal cancer identifies punctuated and gradual diversification patterns by Bollen, Yannik, Stelloo, Ellen, van Leenen, Petra, van den Bos, Myrna, Ponsioen, Bas, Lu, Bingxin, van Roosmalen, Markus J., Bolhaqueiro, Ana C. F., Kimberley, Christopher, Mossner, Maximilian, Cross, William C. H., Besselink, Nicolle J. M., van der Roest, Bastiaan, Boymans, Sander, Oost, Koen C., de Vries, Sippe G., Rehmann, Holger, Cuppen, Edwin, Lens, Susanne M. A., Kops, Geert J. P. L., Kloosterman, Wigard P., Terstappen, Leon W. M. M., Barnes, Chris P., Sottoriva, Andrea, Graham, Trevor A., Snippert, Hugo J. G.

“…Central to tumor evolution is the generation of genetic diversity. However, the extent and patterns by which de novo karyotype alterations emerge and propagate…”
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Sperm DNA damage causes genomic instability in early embryonic development by Middelkamp, Sjors, van Tol, Helena T A, Spierings, Diana C J, Boymans, Sander, Guryev, Victor, Roelen, Bernard A J, Lansdorp, Peter M, Cuppen, Edwin, Kuijk, Ewart W

“…Genomic instability is common in human embryos, but the underlying causes are largely unknown. Here, we examined the consequences of sperm DNA damage on the…”
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Fast selection of miRNA candidates based on large-scale pre-computed MFE sets of randomized sequences by Warris, Sven, Boymans, Sander, Muiser, Iwe, Noback, Michiel, Krijnen, Wim, Nap, Jan-Peter

“…Small RNAs are important regulators of genome function, yet their prediction in genomes is still a major computational challenge. Statistical analyses of…”
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Integrative Functional Annotation of 52 Genetic Loci Influencing Myocardial Mass Identifies Candidate Regulatory Variants and Target Genes by Hemerich, Daiane, Pei, Jiayi, Harakalova, Magdalena, van Setten, Jessica, Boymans, Sander, Boukens, Bas J, Efimov, Igor R, Michels, Michelle, van der Velden, Jolanda, Vink, Aryan, Cheng, Caroline, van der Harst, Pim, Moore, Jason H, Mokry, Michal, Tragante, Vinicius, Asselbergs, Folkert W

“…Regulatory elements may be involved in the mechanisms by which 52 loci influence myocardial mass, reflected by abnormal amplitude and duration of the QRS…”
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