| Year |
Citation |
Score |
| 2023 |
Maresca M, van den Brand T, Li H, Teunissen H, Davies J, de Wit E. Pioneer activity distinguishes activating from non-activating SOX2 binding sites. The Embo Journal. e113150. PMID 37691488 DOI: 10.15252/embj.2022113150 |
0.333 |
|
| 2022 |
van Schaik T, Manzo SG, Vouzas AE, Liu NQ, Teunissen H, de Wit E, Gilbert DM, van Steensel B. Dynamic chromosomal interactions and control of heterochromatin positioning by Ki-67. Embo Reports. e55782. PMID 36245428 DOI: 10.15252/embr.202255782 |
0.38 |
|
| 2022 |
Dimitrova E, Feldmann A, van der Weide RH, Flach KD, Lastuvkova A, de Wit E, Klose RJ. Distinct roles for CKM-Mediator in controlling Polycomb-dependent chromosomal interactions and priming genes for induction. Nature Structural & Molecular Biology. 29: 1000-1010. PMID 36220895 DOI: 10.1038/s41594-022-00840-5 |
0.394 |
|
| 2022 |
de Wit E, Nora EP. New insights into genome folding by loop extrusion from inducible degron technologies. Nature Reviews. Genetics. PMID 36180596 DOI: 10.1038/s41576-022-00530-4 |
0.349 |
|
| 2022 |
van Schaik T, Liu NQ, Manzo SG, Peric-Hupkes D, de Wit E, van Steensel B. CTCF and cohesin promote focal detachment of DNA from the nuclear lamina. Genome Biology. 23: 185. PMID 36050765 DOI: 10.1186/s13059-022-02754-3 |
0.383 |
|
| 2022 |
Maresca M, Liu NQ, de Wit E. Acute Protein Depletion Strategies to Functionally Dissect the 3D Genome. Methods in Molecular Biology (Clifton, N.J.). 2532: 311-331. PMID 35867256 DOI: 10.1007/978-1-0716-2497-5_15 |
0.301 |
|
| 2022 |
van Ruiten MS, van Gent D, Sedeño Cacciatore Á, Fauster A, Willems L, Hekkelman ML, Hoekman L, Altelaar M, Haarhuis JHI, Brummelkamp TR, de Wit E, Rowland BD. The cohesin acetylation cycle controls chromatin loop length through a PDS5A brake mechanism. Nature Structural & Molecular Biology. 29: 586-591. PMID 35710836 DOI: 10.1038/s41594-022-00773-z |
0.327 |
|
| 2022 |
Haarhuis JHI, van der Weide RH, Blomen VA, Flach KD, Teunissen H, Willems L, Brummelkamp TR, Rowland BD, de Wit E. A Mediator-cohesin axis controls heterochromatin domain formation. Nature Communications. 13: 754. PMID 35136067 DOI: 10.1038/s41467-022-28377-7 |
0.367 |
|
| 2021 |
Manjón AG, Linder S, Teunissen H, Friskes A, Zwart W, de Wit E, Medema RH. Unexpected gene activation following CRISPR-Cas9-mediated genome editing. Embo Reports. e53902. PMID 34927791 DOI: 10.15252/embr.202153902 |
0.356 |
|
| 2021 |
van der Weide RH, van den Brand T, Haarhuis JHI, Teunissen H, Rowland BD, de Wit E. Hi-C analyses with GENOVA: a case study with cohesin variants. Nar Genomics and Bioinformatics. 3: lqab040. PMID 34046591 DOI: 10.1093/nargab/lqab040 |
0.38 |
|
| 2020 |
Liu NQ, Maresca M, van den Brand T, Braccioli L, Schijns MMGA, Teunissen H, Bruneau BG, Nora EP, de Wit E. WAPL maintains a cohesin loading cycle to preserve cell-type-specific distal gene regulation. Nature Genetics. PMID 33318687 DOI: 10.1038/s41588-020-00744-4 |
0.391 |
|
| 2020 |
Li Y, Haarhuis JHI, Cacciatore ÁS, Oldenkamp R, van Ruiten MS, Willems L, Teunissen H, Muir KW, de Wit E, Rowland BD, Panne D. The structural basis for cohesin-CTCF-anchored loops. Nature. PMID 31905366 DOI: 10.1038/s41586-019-1910-z |
0.307 |
|
| 2020 |
de Wit E. TADs as the Caller Calls Them. Journal of Molecular Biology. 432: 638-642. PMID 31654669 DOI: 10.1016/j.jmb.2019.09.026 |
0.369 |
|
| 2019 |
de Wit E. Gene Regulation Knows Its Boundaries. Trends in Genetics : Tig. 35: 883-885. PMID 31623870 DOI: 10.1016/j.tig.2019.09.002 |
0.329 |
|
| 2019 |
Kaaij LJT, Mohn F, van der Weide RH, de Wit E, Bühler M. The ChAHP Complex Counteracts Chromatin Looping at CTCF Sites that Emerged from SINE Expansions in Mouse. Cell. 178: 1437-1451.e14. PMID 31491387 DOI: 10.1016/j.cell.2019.08.007 |
0.304 |
|
| 2019 |
van Bemmel JG, Galupa R, Gard C, Servant N, Picard C, Davies J, Szempruch AJ, Zhan Y, Żylicz JJ, Nora EP, Lameiras S, de Wit E, Gentien D, Baulande S, Giorgetti L, et al. The bipartite TAD organization of the X-inactivation center ensures opposing developmental regulation of Tsix and Xist. Nature Genetics. 51: 1024-1034. PMID 31133748 DOI: 10.1038/s41588-019-0412-0 |
0.366 |
|
| 2019 |
van der Weide RH, de Wit E. Developing landscapes: genome architecture during early embryogenesis. Current Opinion in Genetics & Development. 55: 39-45. PMID 31112906 DOI: 10.1016/j.gde.2019.04.009 |
0.304 |
|
| 2019 |
Braccioli L, de Wit E. CTCF: a Swiss-army knife for genome organization and transcription regulation. Essays in Biochemistry. 63: 157-165. PMID 30940740 DOI: 10.1042/EBC20180069 |
0.403 |
|
| 2018 |
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, et al. Enhancer hubs and loop collisions identified from single-allele topologies. Nature Genetics. PMID 29988121 DOI: 10.1038/s41588-018-0161-5 |
0.666 |
|
| 2018 |
Kaaij LJT, van der Weide RH, Ketting RF, de Wit E. Systemic Loss and Gain of Chromatin Architecture throughout Zebrafish Development. Cell Reports. 24: 1-10.e4. PMID 29972771 DOI: 10.1016/J.Celrep.2018.06.003 |
0.402 |
|
| 2018 |
Geeven G, Teunissen H, de Laat W, de Wit E. peakC: a flexible, non-parametric peak calling package for 4C and Capture-C data. Nucleic Acids Research. PMID 29800273 DOI: 10.1093/nar/gky443 |
0.592 |
|
| 2017 |
Vermeulen C, Geeven G, de Wit E, Verstegen MJAM, Jansen RPM, van Kranenburg M, de Bruijn E, Pulit SL, Kruisselbrink E, Shahsavari Z, Omrani D, Zeinali F, Najmabadi H, Katsila T, Vrettou C, et al. Sensitive Monogenic Noninvasive Prenatal Diagnosis by Targeted Haplotyping. American Journal of Human Genetics. PMID 28844486 DOI: 10.1016/j.ajhg.2017.07.012 |
0.508 |
|
| 2017 |
Haarhuis JHI, van der Weide RH, Blomen VA, Yáñez-Cuna JO, Amendola M, van Ruiten MS, Krijger PHL, Teunissen H, Medema RH, van Steensel B, Brummelkamp TR, de Wit E, Rowland BD. The Cohesin Release Factor WAPL Restricts Chromatin Loop Extension. Cell. 169: 693-707.e14. PMID 28475897 DOI: 10.1016/j.cell.2017.04.013 |
0.383 |
|
| 2016 |
Wang X, Tucker NR, Rizki G, Mills R, Krijger PH, de Wit E, Subramanian V, Bartell E, Nguyen XX, Ye J, Leyton-Mange J, Dolmatova EV, van der Harst P, de Laat W, Ellinor PT, et al. Discovery and validation of sub-threshold genome-wide association study loci using epigenomic signatures. Elife. 5. PMID 27162171 DOI: 10.7554/Elife.10557 |
0.572 |
|
| 2016 |
Krijger PH, Di Stefano B, de Wit E, Limone F, van Oevelen C, de Laat W, Graf T. Cell-of-Origin-Specific 3D Genome Structure Acquired during Somatic Cell Reprogramming. Cell Stem Cell. PMID 26971819 DOI: 10.1016/j.stem.2016.01.007 |
0.624 |
|
| 2015 |
Austenaa LM, Barozzi I, Simonatto M, Masella S, Della Chiara G, Ghisletti S, Curina A, de Wit E, Bouwman BA, de Pretis S, Piccolo V, Termanini A, Prosperini E, Pelizzola M, de Laat W, et al. Transcription of Mammalian cis-Regulatory Elements Is Restrained by Actively Enforced Early Termination. Molecular Cell. 60: 460-74. PMID 26593720 DOI: 10.1016/j.molcel.2015.09.018 |
0.56 |
|
| 2015 |
Zepeda-Mendoza CJ, Mukhopadhyay S, Wong ES, Harder N, Splinter E, de Wit E, Eckersley-Maslin MA, Ried T, Eils R, Rohr K, Mills A, de Laat W, Flicek P, Sengupta AM, Spector DL. Quantitative analysis of chromatin interaction changes upon a 4.3 Mb deletion at mouse 4E2. Bmc Genomics. 16: 982. PMID 26589460 DOI: 10.1186/S12864-015-2137-5 |
0.657 |
|
| 2015 |
de Wit E, Vos ES, Holwerda SJ, Valdes-Quezada C, Verstegen MJ, Teunissen H, Splinter E, Wijchers PJ, Krijger PH, de Laat W. CTCF Binding Polarity Determines Chromatin Looping. Molecular Cell. PMID 26527277 DOI: 10.1016/j.molcel.2015.09.023 |
0.588 |
|
| 2015 |
Ramírez F, Lingg T, Toscano S, Lam KC, Georgiev P, Chung HR, Lajoie BR, de Wit E, Zhan Y, de Laat W, Dekker J, Manke T, Akhtar A. High-Affinity Sites Form an Interaction Network to Facilitate Spreading of the MSL Complex across the X Chromosome in Drosophila. Molecular Cell. 60: 146-62. PMID 26431028 DOI: 10.1016/J.Molcel.2015.08.024 |
0.597 |
|
| 2015 |
Wijchers PJ, Geeven G, Eyres M, Bergsma AJ, Janssen M, Verstegen M, Zhu Y, Schell Y, Vermeulen C, de Wit E, de Laat W. Characterization and dynamics of pericentromere-associated domains in mice. Genome Research. 25: 958-69. PMID 25883320 DOI: 10.1101/gr.186643.114 |
0.664 |
|
| 2014 |
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, et al. Targeted sequencing by proximity ligation for comprehensive variant detection and local haplotyping. Nature Biotechnology. 32: 1019-25. PMID 25129690 DOI: 10.1038/nbt.2959 |
0.587 |
|
| 2014 |
Gröschel S, Sanders MA, Hoogenboezem R, De Wit E, Bouwman BAM, Erpelinck C, Van Der Velden VHJ, Havermans M, Avellino R, Van Lom K, Rombouts EJ, Van Duin M, Döhner K, Beverloo HB, Bradner JE, et al. A single oncogenic enhancer rearrangement causes concomitant EVI1 and GATA2 deregulation in Leukemia Cell. 157: 369-381. PMID 24703711 DOI: 10.1016/j.cell.2014.02.019 |
0.65 |
|
| 2013 |
De Wit E, Bouwman BAM, Zhu Y, Klous P, Splinter E, Verstegen MJAM, Krijger PHL, Festuccia N, Nora EP, Welling M, Heard E, Geijsen N, Poot RA, Chambers I, De Laat W. The pluripotent genome in three dimensions is shaped around pluripotency factors Nature. 501: 227-231. PMID 23883933 DOI: 10.1038/nature12420 |
0.628 |
|
| 2013 |
Kaaij LT, van de Wetering M, Fang F, Decato B, Molaro A, van de Werken HJ, van Es JH, Schuijers J, de Wit E, de Laat W, Hannon GJ, Clevers HC, Smith AD, Ketting RF. DNA methylation dynamics during intestinal stem cell differentiation reveals enhancers driving gene expression in the villus. Genome Biology. 14: R50. PMID 23714178 DOI: 10.1186/Gb-2013-14-5-R50 |
0.595 |
|
| 2013 |
Eijkelenboom A, Mokry M, De Wit E, Smits LM, Polderman PE, Van Triest MH, Van Boxtel R, Schulze A, De Laat W, Cuppen E, Burgering BMT. Genome-wide analysis of FOXO3 mediated transcription regulation through RNA polymerase II profiling Molecular Systems Biology. 9. PMID 23340844 DOI: 10.1038/msb.2012.74 |
0.619 |
|
| 2013 |
Melo CA, Drost J, Wijchers PJ, van de Werken H, de Wit E, Oude Vrielink JA, Elkon R, Melo SA, Léveillé N, Kalluri R, de Laat W, Agami R. eRNAs are required for p53-dependent enhancer activity and gene transcription. Molecular Cell. 49: 524-35. PMID 23273978 DOI: 10.1016/j.molcel.2012.11.021 |
0.603 |
|
| 2012 |
Van De Werken HJG, Landan G, Holwerda SJB, Hoichman M, Klous P, Chachik R, Splinter E, Valdes-Quezada C, Öz Y, Bouwman BAM, Verstegen MJAM, De Wit E, Tanay A, De Laat W. Robust 4C-seq data analysis to screen for regulatory DNA interactions Nature Methods. 9: 969-972. PMID 22961246 DOI: 10.1038/nmeth.2173 |
0.643 |
|
| 2012 |
Van De Werken HJG, De Vree PJP, Splinter E, Holwerda SJB, Klous P, De Wit E, De Laat W. 4C technology: Protocols and data analysis Methods in Enzymology. 513: 89-112. PMID 22929766 DOI: 10.1016/B978-0-12-391938-0.00004-5 |
0.609 |
|
| 2012 |
Splinter E, de Wit E, van de Werken HJG, Klous P, de Laat W. Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: From fixation to computation Methods. 58: 221-230. PMID 22609568 DOI: 10.1016/j.ymeth.2012.04.009 |
0.592 |
|
| 2012 |
de Wit E, de Laat W. A decade of 3C technologies: Insights into nuclear organization Genes and Development. 26: 11-24. PMID 22215806 DOI: 10.1101/gad.179804.111 |
0.634 |
|
| 2011 |
Noordermeer D, de Wit E, Klous P, van de Werken H, Simonis M, Lopez-Jones M, Eussen B, de Klein A, Singer RH, de Laat W. Variegated gene expression caused by cell-specific long-range DNA interactions. Nature Cell Biology. 13: 944-51. PMID 21706023 DOI: 10.1038/Ncb2278 |
0.735 |
|
| 2011 |
Splinter E, de Wit E, Nora EP, Klous P, van de Werken HJG, Zhu Y, Kaaij LJT, van Ijcken W, Gribnau J, Heard E, de Laat W. The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA Genes and Development. 25: 1371-1383. PMID 21690198 DOI: 10.1101/gad.633311 |
0.625 |
|
| 2009 |
de Wit E, van Steensel B. Chromatin domains in higher eukaryotes: insights from genome-wide mapping studies. Chromosoma. 118: 25-36. PMID 18853173 DOI: 10.1007/s00412-008-0186-0 |
0.419 |
|
| 2008 |
de Wit E, Braunschweig U, Greil F, Bussemaker HJ, van Steensel B. Global chromatin domain organization of the Drosophila genome. Plos Genetics. 4: e1000045. PMID 18369463 DOI: 10.1371/Journal.Pgen.1000045 |
0.39 |
|
| 2007 |
Pindyurin AV, Moorman C, de Wit E, Belyakin SN, Belyaeva ES, Christophides GK, Kafatos FC, van Steensel B, Zhimulev IF. SUUR joins separate subsets of PcG, HP1 and B-type lamin targets in Drosophila. Journal of Cell Science. 120: 2344-51. PMID 17606990 DOI: 10.1242/jcs.006007 |
0.397 |
|
| 2007 |
de Wit E, Greil F, van Steensel B. High-resolution mapping reveals links of HP1 with active and inactive chromatin components. Plos Genetics. 3: e38. PMID 17335352 DOI: 10.1371/journal.pgen.0030038 |
0.406 |
|
| 2007 |
Greil F, de Wit E, Bussemaker HJ, van Steensel B. HP1 controls genomic targeting of four novel heterochromatin proteins in Drosophila. The Embo Journal. 26: 741-51. PMID 17255947 DOI: 10.1038/Sj.Emboj.7601527 |
0.339 |
|
| 2006 |
Simonis M, Klous P, Splinter E, Moshkin Y, Willemsen R, De Wit E, Van Steensel B, De Laat W. Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C) Nature Genetics. 38: 1348-1354. PMID 17033623 DOI: 10.1038/ng1896 |
0.672 |
|
| 2006 |
Moorman C, Sun LV, Wang J, de Wit E, Talhout W, Ward LD, Greil F, Lu XJ, White KP, Bussemaker HJ, van Steensel B. Hotspots of transcription factor colocalization in the genome of Drosophila melanogaster. Proceedings of the National Academy of Sciences of the United States of America. 103: 12027-32. PMID 16880385 DOI: 10.1073/Pnas.0605003103 |
0.393 |
|
| 2006 |
Pickersgill H, Kalverda B, de Wit E, Talhout W, Fornerod M, van Steensel B. Characterization of the Drosophila melanogaster genome at the nuclear lamina. Nature Genetics. 38: 1005-14. PMID 16878134 DOI: 10.1038/ng1852 |
0.46 |
|
| 2006 |
Tolhuis B, de Wit E, Muijrers I, Teunissen H, Talhout W, van Steensel B, van Lohuizen M. Genome-wide profiling of PRC1 and PRC2 Polycomb chromatin binding in Drosophila melanogaster. Nature Genetics. 38: 694-9. PMID 16628213 DOI: 10.1038/ng1792 |
0.652 |
|
| 2006 |
Gilfillan GD, Straub T, de Wit E, Greil F, Lamm R, van Steensel B, Becker PB. Chromosome-wide gene-specific targeting of the Drosophila dosage compensation complex. Genes & Development. 20: 858-70. PMID 16547172 DOI: 10.1101/gad.1399406 |
0.374 |
|
| 2005 |
de Wit E, Greil F, van Steensel B. Genome-wide HP1 binding in Drosophila: developmental plasticity and genomic targeting signals. Genome Research. 15: 1265-73. PMID 16109969 DOI: 10.1101/gr.3198905 |
0.437 |
|
| 2003 |
Greil F, van der Kraan I, Delrow J, Smothers JF, de Wit E, Bussemaker HJ, van Driel R, Henikoff S, van Steensel B. Distinct HP1 and Su(var)3-9 complexes bind to sets of developmentally coexpressed genes depending on chromosomal location. Genes & Development. 17: 2825-38. PMID 14630943 DOI: 10.1101/Gad.281503 |
0.386 |
|
| 2003 |
Reijans M, Lascaris R, Groeneger AO, Wittenberg A, Wesselink E, van Oeveren J, de Wit E, Boorsma A, Voetdijk B, van der Spek H, Grivell LA, Simons G. Quantitative comparison of cDNA-AFLP, microarrays, and GeneChip expression data in Saccharomyces cerevisiae. Genomics. 82: 606-18. PMID 14611802 |
0.344 |
|
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