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4C technology: protocols and data analysis.
van de Werken HJ, de Vree PJ, Splinter E, Holwerda SJ, Klous P, de Wit E, de Laat W. van de Werken HJ, et al. Among authors: de vree pj, de laat w, de wit e. Methods Enzymol. 2012;513:89-112. doi: 10.1016/B978-0-12-391938-0.00004-5. Methods Enzymol. 2012. PMID: 22929766
Multi-Modality Analysis Improves Survival Prediction in Enucleated Uveal Melanoma Patients.
Drabarek W, Yavuzyigitoglu S, Obulkasim A, van Riet J, Smit KN, van Poppelen NM, Vaarwater J, Brands T, Eussen B, Verdijk RM, Naus NC, Mensink HW, Paridaens D, Boersma E, van de Werken HJG, Kilic E, de Klein A; Rotterdam Ocular Melanoma Study Group. Drabarek W, et al. Invest Ophthalmol Vis Sci. 2019 Aug 1;60(10):3595-3605. doi: 10.1167/iovs.18-24818. Invest Ophthalmol Vis Sci. 2019. PMID: 31425584
Robust 4C-seq data analysis to screen for regulatory DNA interactions.
van de Werken HJ, Landan G, Holwerda SJ, Hoichman M, Klous P, Chachik R, Splinter E, Valdes-Quezada C, Oz Y, Bouwman BA, Verstegen MJ, de Wit E, Tanay A, de Laat W. van de Werken HJ, et al. Among authors: de laat w, de wit e. Nat Methods. 2012 Oct;9(10):969-72. doi: 10.1038/nmeth.2173. Epub 2012 Sep 9. Nat Methods. 2012. PMID: 22961246
Allelic exclusion of the immunoglobulin heavy chain locus is independent of its nuclear localization in mature B cells.
Holwerda SJ, van de Werken HJ, Ribeiro de Almeida C, Bergen IM, de Bruijn MJ, Verstegen MJ, Simonis M, Splinter E, Wijchers PJ, Hendriks RW, de Laat W. Holwerda SJ, et al. Among authors: de bruijn mj, de laat w, van de werken hj. Nucleic Acids Res. 2013 Aug;41(14):6905-16. doi: 10.1093/nar/gkt491. Epub 2013 Jun 7. Nucleic Acids Res. 2013. PMID: 23748562 Free PMC article.
Small chromosomal regions position themselves autonomously according to their chromatin class.
van de Werken HJG, Haan JC, Feodorova Y, Bijos D, Weuts A, Theunis K, Holwerda SJB, Meuleman W, Pagie L, Thanisch K, Kumar P, Leonhardt H, Marynen P, van Steensel B, Voet T, de Laat W, Solovei I, Joffe B. van de Werken HJG, et al. Genome Res. 2017 Jun;27(6):922-933. doi: 10.1101/gr.213751.116. Epub 2017 Mar 24. Genome Res. 2017. PMID: 28341771 Free PMC article.
A large permissive regulatory domain exclusively controls Tbx3 expression in the cardiac conduction system.
van Weerd JH, Badi I, van den Boogaard M, Stefanovic S, van de Werken HJ, Gomez-Velazquez M, Badia-Careaga C, Manzanares M, de Laat W, Barnett P, Christoffels VM. van Weerd JH, et al. Among authors: van den boogaard m, de laat w, van de werken hj. Circ Res. 2014 Aug 1;115(4):432-41. doi: 10.1161/CIRCRESAHA.115.303591. Epub 2014 Jun 24. Circ Res. 2014. PMID: 24963028
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