Zobrazeno 1 - 10
of 108
pro vyhledávání: '"Wigard P. Kloosterman"'
Autor:
Alessio Marcozzi, Myrthe Jager, Martin Elferink, Roy Straver, Joost H. van Ginkel, Boris Peltenburg, Li-Ting Chen, Ivo Renkens, Joyce van Kuik, Chris Terhaard, Remco de Bree, Lot A. Devriese, Stefan M. Willems, Wigard P. Kloosterman, Jeroen de Ridder
Publikováno v:
npj Genomic Medicine, Vol 6, Iss 1, Pp 1-11 (2021)
Abstract Levels of circulating tumor DNA (ctDNA) in liquid biopsies may serve as a sensitive biomarker for real-time, minimally-invasive tumor diagnostics and monitoring. However, detecting ctDNA is challenging, as much fewer than 5% of the cell-free
Externí odkaz:
https://doaj.org/article/876ba2e504214507ada4be457cb69876
Autor:
Alessio Marcozzi, Myrthe Jager, Martin Elferink, Roy Straver, Joost H. van Ginkel, Boris Peltenburg, Li-Ting Chen, Ivo Renkens, Joyce van Kuik, Chris Terhaard, Remco de Bree, Lot A. Devriese, Stefan M. Willems, Wigard P. Kloosterman, Jeroen de Ridder
Publikováno v:
npj Genomic Medicine, Vol 8, Iss 1, Pp 1-1 (2023)
Externí odkaz:
https://doaj.org/article/c14ffc21d524455a986206f100c1542e
Autor:
Jose Espejo Valle-Inclan, Christina Stangl, Anouk C. de Jong, Lisanne F. van Dessel, Markus J. van Roosmalen, Jean C. A. Helmijr, Ivo Renkens, Roel Janssen, Sam de Blank, Chris J. de Witte, John W. M. Martens, Maurice P. H. M. Jansen, Martijn P. Lolkema, Wigard P. Kloosterman
Publikováno v:
Genome Medicine, Vol 13, Iss 1, Pp 1-14 (2021)
Abstract Here, we describe a novel approach for rapid discovery of a set of tumor-specific genomic structural variants (SVs), based on a combination of low coverage cancer genome sequencing using Oxford Nanopore with an SV calling and filtering pipel
Externí odkaz:
https://doaj.org/article/dc2d84df5339442da6944319858a489d
Autor:
Jose Espejo Valle-Inclan, Nicolle J.M. Besselink, Ewart de Bruijn, Daniel L. Cameron, Jana Ebler, Joachim Kutzera, Stef van Lieshout, Tobias Marschall, Marcel Nelen, Peter Priestley, Ivo Renkens, Margaretha G.M. Roemer, Markus J. van Roosmalen, Aaron M. Wenger, Bauke Ylstra, Remond J.A. Fijneman, Wigard P. Kloosterman, Edwin Cuppen
Publikováno v:
Cell Genomics, Vol 2, Iss 6, Pp 100139- (2022)
Summary: Accurate detection of somatic structural variation (SV) in cancer genomes remains a challenging problem. This is in part due to the lack of high-quality, gold-standard datasets that enable the benchmarking of experimental approaches and bioi
Externí odkaz:
https://doaj.org/article/f08ff7a8abe64b31bdcb821bc498cd0a
Autor:
Christina Stangl, Sam de Blank, Ivo Renkens, Liset Westera, Tamara Verbeek, Jose Espejo Valle-Inclan, Rocio Chamorro González, Anton G. Henssen, Markus J. van Roosmalen, Ronald W. Stam, Emile E. Voest, Wigard P. Kloosterman, Gijs van Haaften, Glen R. Monroe
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-14 (2020)
Fusion genes are a hallmarks of cancer, though breakpoint-position promiscuity restricts diagnostic detection. Here, the authors present FUDGE, a CRISPR-Cas9-based enrichment strategy for nanopore sequencing to identify target fusions irrespective of
Externí odkaz:
https://doaj.org/article/e33d69e505f647c4a248cf888947cfbb
Autor:
Sjors Middelkamp, Judith M. Vlaar, Jacques Giltay, Jerome Korzelius, Nicolle Besselink, Sander Boymans, Roel Janssen, Lisanne de la Fonteijne, Ellen van Binsbergen, Markus J. van Roosmalen, Ron Hochstenbach, Daniela Giachino, Michael E. Talkowski, Wigard P. Kloosterman, Edwin Cuppen
Publikováno v:
Genome Medicine, Vol 11, Iss 1, Pp 1-15 (2019)
Abstract Background Genomic structural variants (SVs) can affect many genes and regulatory elements. Therefore, the molecular mechanisms driving the phenotypes of patients carrying de novo SVs are frequently unknown. Methods We applied a combination
Externí odkaz:
https://doaj.org/article/341d24bce7eb47ffb1b6902c15a0ce41
Autor:
Linette T. Oosting, Katka Franke, Michael V. Martin, Wigard P. Kloosterman, Jennifer A. Jamieson, Laura A. Glenn, Miranda W. de Jager, Jacoba van Zanten, Derk P. Allersma, Bahez Gareb
Publikováno v:
Pharmaceutics, Vol 14, Iss 7, p 1515 (2022)
Stage III–IV non-small cell lung cancer (NSCLC) is a devastating disease characterized by a poor prognosis. NSCLC tumors carry genetic mutations, which can lead to the expression of altered protein sequences. Peptides originating from mutated prote
Externí odkaz:
https://doaj.org/article/aa2c9d3be63c45099a8573226ec73064
Autor:
Arnold Kuzniar, Jason Maassen, Stefan Verhoeven, Luca Santuari, Carl Shneider, Wigard P. Kloosterman, Jeroen de Ridder
Publikováno v:
PeerJ, Vol 8, p e8214 (2020)
Structural variants (SVs) are an important class of genetic variation implicated in a wide array of genetic diseases including cancer. Despite the advances in whole genome sequencing, comprehensive and accurate detection of SVs in short-read data sti
Externí odkaz:
https://doaj.org/article/be0b73b1c8184320a840c760a5771949
Publikováno v:
Genome Biology, Vol 19, Iss 1, Pp 1-11 (2018)
Abstract Nanopore sequencing is a rapidly maturing technology delivering long reads in real time on a portable instrument at low cost. Not surprisingly, the community has rapidly taken up this new way of sequencing and has used it successfully for a
Externí odkaz:
https://doaj.org/article/5781d8d885d2458686d2b36b9bded185
Autor:
Marcel Smid, Robert R. J. Coebergh van den Braak, Harmen J. G. van de Werken, Job van Riet, Anne van Galen, Vanja de Weerd, Michelle van der Vlugt-Daane, Sandra I. Bril, Zarina S. Lalmahomed, Wigard P. Kloosterman, Saskia M. Wilting, John A. Foekens, Jan N. M. IJzermans, on behalf of the MATCH study group, John W. M. Martens, Anieta M. Sieuwerts
Publikováno v:
BMC Bioinformatics, Vol 19, Iss 1, Pp 1-13 (2018)
Abstract Background Current normalization methods for RNA-sequencing data allow either for intersample comparison to identify differentially expressed (DE) genes or for intrasample comparison for the discovery and validation of gene signatures. Most
Externí odkaz:
https://doaj.org/article/0b7a92e9f436482ca4f434ca1ad429a9