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Robust detection of translocations in lymphoma FFPE samples using targeted locus capture-based sequencing.
Allahyar A, Pieterse M, Swennenhuis J, Los-de Vries GT, Yilmaz M, Leguit R, Meijers RWJ, van der Geize R, Vermaat J, Cleven A, van Wezel T, Diepstra A, van Kempen LC, Hijmering NJ, Stathi P, Sharma M, Melquiond ASJ, de Vree PJP, Verstegen MJAM, Krijger PHL, Hajo K, Simonis M, Rakszewska A, van Min M, de Jong D, Ylstra B, Feitsma H, Splinter E, de Laat W. Allahyar A, et al. Among authors: krijger phl. Nat Commun. 2021 Jun 7;12(1):3361. doi: 10.1038/s41467-021-23695-8. Nat Commun. 2021. PMID: 34099699 Free PMC article.
Targeted sequencing by proximity ligation for comprehensive variant detection and local haplotyping.
de Vree PJ, de Wit E, Yilmaz M, van de Heijning M, Klous P, Verstegen MJ, Wan Y, Teunissen H, Krijger PH, Geeven G, Eijk PP, Sie D, Ylstra B, Hulsman LO, van Dooren MF, van Zutven LJ, van den Ouweland A, Verbeek S, van Dijk KW, Cornelissen M, Das AT, Berkhout B, Sikkema-Raddatz B, van den Berg E, van der Vlies P, Weening D, den Dunnen JT, Matusiak M, Lamkanfi M, Ligtenberg MJ, ter Brugge P, Jonkers J, Foekens JA, Martens JW, van der Luijt R, van Amstel HK, van Min M, Splinter E, de Laat W. de Vree PJ, et al. Nat Biotechnol. 2014 Oct;32(10):1019-25. doi: 10.1038/nbt.2959. Epub 2014 Aug 17. Nat Biotechnol. 2014. PMID: 25129690
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. 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.
Cause and Consequence of Tethering a SubTAD to Different Nuclear Compartments.
Wijchers PJ, Krijger PHL, Geeven G, Zhu Y, Denker A, Verstegen MJAM, Valdes-Quezada C, Vermeulen C, Janssen M, Teunissen H, Anink-Groenen LCM, Verschure PJ, de Laat W. Wijchers PJ, et al. Among authors: krijger phl. Mol Cell. 2016 Feb 4;61(3):461-473. doi: 10.1016/j.molcel.2016.01.001. Epub 2016 Jan 28. Mol Cell. 2016. PMID: 26833089 Free PMC article.
Enhancer hubs and loop collisions identified from single-allele topologies.
Allahyar A, Vermeulen C, Bouwman BAM, Krijger PHL, Verstegen MJAM, Geeven G, van Kranenburg M, Pieterse M, Straver R, Haarhuis JHI, Jalink K, Teunissen H, Renkens IJ, Kloosterman WP, Rowland BD, de Wit E, de Ridder J, de Laat W. Allahyar A, et al. Among authors: krijger phl. Nat Genet. 2018 Aug;50(8):1151-1160. doi: 10.1038/s41588-018-0161-5. Epub 2018 Jul 9. Nat Genet. 2018. PMID: 29988121
Multi-contact 4C: long-molecule sequencing of complex proximity ligation products to uncover local cooperative and competitive chromatin topologies.
Vermeulen C, Allahyar A, Bouwman BAM, Krijger PHL, Verstegen MJAM, Geeven G, Valdes-Quezada C, Renkens I, Straver R, Kloosterman WP, de Ridder J, de Laat W. Vermeulen C, et al. Among authors: krijger phl. Nat Protoc. 2020 Feb;15(2):364-397. doi: 10.1038/s41596-019-0242-7. Epub 2020 Jan 13. Nat Protoc. 2020. PMID: 31932773
34 results