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Fusion transcripts and their genomic breakpoints in polyadenylated and ribosomal RNA-minus RNA sequencing data.
Hoogstrate Y, Komor MA, Böttcher R, van Riet J, van de Werken HJG, van Lieshout S, Hoffmann R, van den Broek E, Bolijn AS, Dits N, Sie D, van der Meer D, Pepers F, Bangma CH, van Leenders GJLH, Smid M, French PJ, Martens JWM, van Workum W, van der Spek PJ, Janssen B, Caldenhoven E, Rausch C, de Jong M, Stubbs AP, Meijer GA, Fijneman RJA, Jenster GW. Hoogstrate Y, et al. Among authors: van der spek pj, van workum w, van lieshout s, van den broek e, van riet j, van der meer d, van de werken hjg, van leenders gjlh. Gigascience. 2021 Dec 9;10(12):giab080. doi: 10.1093/gigascience/giab080. Gigascience. 2021. PMID: 34891161 Free PMC article.
Correlation of Gene Mutation Status with Copy Number Profile in Uveal Melanoma.
Yavuzyigitoglu S, Drabarek W, Smit KN, van Poppelen N, Koopmans AE, Vaarwater J, Brands T, Eussen B, Dubbink HJ, van Riet J, van de Werken HJ, Beverloo B, Verdijk RM, Naus N, Paridaens D, Kilic E, de Klein A; Rotterdam Ocular Melanoma Study Group. Yavuzyigitoglu S, et al. Among authors: van poppelen n, van riet j, van de werken hj. Ophthalmology. 2017 Apr;124(4):573-575. doi: 10.1016/j.ophtha.2016.10.039. Epub 2016 Dec 1. Ophthalmology. 2017. PMID: 27916271 No abstract available.
SNPitty: An Intuitive Web Application for Interactive B-Allele Frequency and Copy Number Visualization of Next-Generation Sequencing Data.
van Riet J, Krol NMG, Atmodimedjo PN, Brosens E, van IJcken WFJ, Jansen MPHM, Martens JWM, Looijenga LH, Jenster G, Dubbink HJ, Dinjens WNM, van de Werken HJG. van Riet J, et al. Among authors: van ijcken wfj, van de werken hjg. J Mol Diagn. 2018 Mar;20(2):166-176. doi: 10.1016/j.jmoldx.2017.11.011. Epub 2018 Jan 2. J Mol Diagn. 2018. PMID: 29305224 Free article.
Gene length corrected trimmed mean of M-values (GeTMM) processing of RNA-seq data performs similarly in intersample analyses while improving intrasample comparisons.
Smid M, Coebergh van den Braak RRJ, van de Werken HJG, van Riet J, van Galen A, de Weerd V, van der Vlugt-Daane M, Bril SI, Lalmahomed ZS, Kloosterman WP, Wilting SM, Foekens JA, IJzermans JNM; MATCH study group; Martens JWM, Sieuwerts AM. Smid M, et al. Among authors: van der vlugt daane m, van galen a, van riet j, van de werken hjg. BMC Bioinformatics. 2018 Jun 22;19(1):236. doi: 10.1186/s12859-018-2246-7. BMC Bioinformatics. 2018. PMID: 29929481 Free PMC article.
Functional Ex Vivo Assay Reveals Homologous Recombination Deficiency in Breast Cancer Beyond BRCA Gene Defects.
Meijer TG, Verkaik NS, Sieuwerts AM, van Riet J, Naipal KAT, van Deurzen CHM, den Bakker MA, Sleddens HFBM, Dubbink HJ, den Toom TD, Dinjens WNM, Lips E, Nederlof PM, Smid M, van de Werken HJG, Kanaar R, Martens JWM, Jager A, van Gent DC. Meijer TG, et al. Among authors: van gent dc, van deurzen chm, van riet j, van de werken hjg. Clin Cancer Res. 2018 Dec 15;24(24):6277-6287. doi: 10.1158/1078-0432.CCR-18-0063. Epub 2018 Aug 23. Clin Cancer Res. 2018. PMID: 30139880
Molecular heterogeneity and early metastatic clone selection in testicular germ cell cancer development.
Dorssers LCJ, Gillis AJM, Stoop H, van Marion R, Nieboer MM, van Riet J, van de Werken HJG, Oosterhuis JW, de Ridder J, Looijenga LHJ. Dorssers LCJ, et al. Among authors: van riet j, van marion r, van de werken hjg. Br J Cancer. 2019 Feb;120(4):444-452. doi: 10.1038/s41416-019-0381-1. Epub 2019 Feb 11. Br J Cancer. 2019. PMID: 30739914 Free PMC article.
The genomic landscape of metastatic breast cancer highlights changes in mutation and signature frequencies.
Angus L, Smid M, Wilting SM, van Riet J, Van Hoeck A, Nguyen L, Nik-Zainal S, Steenbruggen TG, Tjan-Heijnen VCG, Labots M, van Riel JMGH, Bloemendal HJ, Steeghs N, Lolkema MP, Voest EE, van de Werken HJG, Jager A, Cuppen E, Sleijfer S, Martens JWM. Angus L, et al. Among authors: van hoeck a, van riel jmgh, van riet j, van de werken hjg. Nat Genet. 2019 Oct;51(10):1450-1458. doi: 10.1038/s41588-019-0507-7. Epub 2019 Sep 30. Nat Genet. 2019. PMID: 31570896 Free PMC article.
The genomic landscape of metastatic castration-resistant prostate cancers reveals multiple distinct genotypes with potential clinical impact.
van Dessel LF, van Riet J, Smits M, Zhu Y, Hamberg P, van der Heijden MS, Bergman AM, van Oort IM, de Wit R, Voest EE, Steeghs N, Yamaguchi TN, Livingstone J, Boutros PC, Martens JWM, Sleijfer S, Cuppen E, Zwart W, van de Werken HJG, Mehra N, Lolkema MP. van Dessel LF, et al. Among authors: van oort im, van der heijden ms, van riet j, van de werken hjg. Nat Commun. 2019 Nov 20;10(1):5251. doi: 10.1038/s41467-019-13084-7. Nat Commun. 2019. PMID: 31748536 Free PMC article.
Synchronous and metachronous urothelial carcinoma of the upper urinary tract and the bladder: Are they clonally related? A systematic review.
van Doeveren T, van de Werken HJG, van Riet J, Aben KKH, van Leeuwen PJ, Zwarthoff EC, Boormans JL. van Doeveren T, et al. Among authors: van leeuwen pj, van riet j, van de werken hjg. Urol Oncol. 2020 Jun;38(6):590-598. doi: 10.1016/j.urolonc.2020.01.008. Epub 2020 Feb 11. Urol Oncol. 2020. PMID: 32057596 Free article.
Cystic renal-epithelial derived induced pluripotent stem cells from polycystic kidney disease patients.
Kenter AT, Rentmeester E, van Riet J, Boers R, Boers J, Ghazvini M, Xavier VJ, van Leenders GJLH, Verhagen PCMS, van Til ME, Eussen B, Losekoot M, de Klein A, Peters DJM, van IJcken WFJ, van de Werken HJG, Zietse R, Hoorn EJ, Jansen G, Gribnau JH. Kenter AT, et al. Among authors: van til me, van ijcken wfj, van riet j, van de werken hjg, van leenders gjlh. Stem Cells Transl Med. 2020 Apr;9(4):478-490. doi: 10.1002/sctm.18-0283. Epub 2020 Mar 12. Stem Cells Transl Med. 2020. PMID: 32163234 Free PMC article.
37 results