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Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns.
Jiao W, Atwal G, Polak P, Karlic R, Cuppen E; PCAWG Tumor Subtypes and Clinical Translation Working Group; Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD; PCAWG Consortium. Jiao W, et al. Among authors: cuppen e. Nat Commun. 2022 Dec 8;13(1):7573. doi: 10.1038/s41467-022-32329-6. Nat Commun. 2022. PMID: 36481665 Free PMC article. No abstract available.
Identifying somatic changes in drug transporters using whole genome and transcriptome sequencing data of advanced tumors.
van de Geer WS, Mathijssen RHJ, van Riet J, Steeghs N, Labots M, van Herpen C, Devriese LA, Tjan-Heijnen VCG, Voest EE, Sleijfer S, Martens JWM, Cuppen E, van de Werken HJG, Bins S. van de Geer WS, et al. Among authors: cuppen e. Biomed Pharmacother. 2023 Mar;159:114210. doi: 10.1016/j.biopha.2022.114210. Epub 2023 Jan 6. Biomed Pharmacother. 2023. PMID: 36621142 Free article.
The genome-wide mutational consequences of DNA hypomethylation.
Besselink N, Keijer J, Vermeulen C, Boymans S, de Ridder J, van Hoeck A, Cuppen E, Kuijk E. Besselink N, et al. Among authors: cuppen e. Sci Rep. 2023 Apr 27;13(1):6874. doi: 10.1038/s41598-023-33932-3. Sci Rep. 2023. PMID: 37106015 Free PMC article.
The genomic and transcriptomic landscape of advanced renal cell cancer for individualized treatment strategies.
de Joode K, van de Geer WS, van Leenders GJLH, Hamberg P, Westgeest HM, Beeker A, Oosting SF, van Rooijen JM, Beerepoot LV, Labots M, Mathijssen RHJ, Lolkema MP, Cuppen E, Sleijfer S, van de Werken HJG, van der Veldt AAM. de Joode K, et al. Among authors: cuppen e. Sci Rep. 2023 Jul 3;13(1):10720. doi: 10.1038/s41598-023-37764-z. Sci Rep. 2023. PMID: 37400554 Free PMC article.
Complete genomic characterization in patients with cancer of unknown primary origin in routine diagnostics.
Schipper LJ, Samsom KG, Snaebjornsson P, Battaglia T, Bosch LJW, Lalezari F, Priestley P, Shale C, van den Broek AJ, Jacobs N, Roepman P, van der Hoeven JJM, Steeghs N, Vollebergh MA, Marchetti S, Cuppen E, Meijer GA, Voest EE, Monkhorst K. Schipper LJ, et al. Among authors: cuppen e. ESMO Open. 2022 Dec;7(6):100611. doi: 10.1016/j.esmoop.2022.100611. Epub 2022 Dec 1. ESMO Open. 2022. PMID: 36463731 Free PMC article.
A pan-cancer analysis of the microbiome in metastatic cancer.
Battaglia TW, Mimpen IL, Traets JJH, van Hoeck A, Zeverijn LJ, Geurts BS, de Wit GF, Noë M, Hofland I, Vos JL, Cornelissen S, Alkemade M, Broeks A, Zuur CL, Cuppen E, Wessels L, van de Haar J, Voest E. Battaglia TW, et al. Among authors: cuppen e. Cell. 2024 Apr 5:S0092-8674(24)00312-X. doi: 10.1016/j.cell.2024.03.021. Online ahead of print. Cell. 2024. PMID: 38599211 Free article.
Impact of genetic counseling strategy on diagnostic yield and workload for genome-sequencing-based tumor diagnostics.
Koster R, Schipper LJ, Giesbertz NAA, van Beek D, Mendeville M, Samsom KG, Rosenberg EH, Hogervorst FBL, Roepman P, Boelens MC, Bosch LJW, van den Berg JG, Meijer GA, Voest EE, Cuppen E, Ruijs MWG, van Wezel T, van der Kolk L, Monkhorst K. Koster R, et al. Among authors: cuppen e. Genet Med. 2024 Feb;26(2):101032. doi: 10.1016/j.gim.2023.101032. Epub 2023 Nov 22. Genet Med. 2024. PMID: 38006283
A multi-platform reference for somatic structural variation detection.
Espejo Valle-Inclan J, Besselink NJM, de Bruijn E, Cameron DL, Ebler J, Kutzera J, van Lieshout S, Marschall T, Nelen M, Priestley P, Renkens I, Roemer MGM, van Roosmalen MJ, Wenger AM, Ylstra B, Fijneman RJA, Kloosterman WP, Cuppen E. Espejo Valle-Inclan J, et al. Among authors: cuppen e. Cell Genom. 2022 Jun 8;2(6):100139. doi: 10.1016/j.xgen.2022.100139. eCollection 2022 Jun 8. Cell Genom. 2022. PMID: 36778136 Free PMC article.
Next generation sequencing of high-grade adult-type diffuse glioma in the Netherlands: interlaboratory variation in the primary diagnostic and recurrent setting.
van Opijnen MP, Broekman MLD, Cuppen E, Dubbink HJ, Ter Elst A, van Eijk R, Mühlebner A, Jansen C, van der Geize R, Speel EM, Groenen PJTA, de Vos FYF, Wesseling P, de Leng WWJ, Maas SLN. van Opijnen MP, et al. Among authors: cuppen e. J Neurooncol. 2024 Feb;166(3):485-492. doi: 10.1007/s11060-024-04568-8. Epub 2024 Jan 29. J Neurooncol. 2024. PMID: 38285243 Free PMC article. Review.
Study protocol of the GLOW study: maximising treatment options for recurrent glioblastoma patients by whole genome sequencing-based diagnostics-a prospective multicenter cohort study.
van Opijnen MP, Broekman MLD, de Vos FYF, Cuppen E, van der Hoeven JJM, van Linde ME, Compter A, Beerepoot LV, van den Bent MJ, Vos MJ, Fiebrich HB, Koekkoek JAF, Hoeben A, Kho KH, Driessen CML, Jeltema HR, Robe PAJT, Maas SLN. van Opijnen MP, et al. Among authors: cuppen e. BMC Med Genomics. 2022 Nov 4;15(1):233. doi: 10.1186/s12920-022-01343-4. BMC Med Genomics. 2022. PMID: 36333718 Free PMC article.
309 results