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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: holwerda sj. Methods Enzymol. 2012;513:89-112. doi: 10.1016/B978-0-12-391938-0.00004-5. Methods Enzymol. 2012. PMID: 22929766
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. Among authors: holwerda sjb. 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.
CTCF Binding Polarity Determines Chromatin Looping.
de Wit E, Vos ES, Holwerda SJ, Valdes-Quezada C, Verstegen MJ, Teunissen H, Splinter E, Wijchers PJ, Krijger PH, de Laat W. de Wit E, et al. Among authors: holwerda sj. Mol Cell. 2015 Nov 19;60(4):676-84. doi: 10.1016/j.molcel.2015.09.023. Epub 2015 Oct 29. Mol Cell. 2015. PMID: 26527277 Free article.
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: holwerda sj. Nat Methods. 2012 Oct;9(10):969-72. doi: 10.1038/nmeth.2173. Epub 2012 Sep 9. Nat Methods. 2012. PMID: 22961246
Flexible long-range loops in the VH gene region of the Igh locus facilitate the generation of a diverse antibody repertoire.
Medvedovic J, Ebert A, Tagoh H, Tamir IM, Schwickert TA, Novatchkova M, Sun Q, Huis In 't Veld PJ, Guo C, Yoon HS, Denizot Y, Holwerda SJ, de Laat W, Cogné M, Shi Y, Alt FW, Busslinger M. Medvedovic J, et al. Among authors: holwerda sj. Immunity. 2013 Aug 22;39(2):229-44. doi: 10.1016/j.immuni.2013.08.011. Immunity. 2013. PMID: 23973221 Free PMC article.
De novo putative loss-of-function variants in TAF4 are associated with a neuro-developmental disorder.
Janssen BDE, van den Boogaard MH, Lichtenbelt K, Seaby EG, Stals K, Ellard S, Newbury-Ecob R, Dixit A, Roht L, Pajusalu S, Õunap K, Firth HV, Buckley M, Wilson M, Roscioli T, Tidwell T, Mao R, Ennis S, Holwerda SJ, van Gassen K, van Jaarsveld RH. Janssen BDE, et al. Among authors: holwerda sj. Hum Mutat. 2022 Jul 29. doi: 10.1002/humu.24444. Online ahead of print. Hum Mutat. 2022. PMID: 35904126
14 results