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Items: 1 to 20 of 42

1.

Single-cell RNA-seq identifies a reversible mesodermal activation in abnormally specified epithelia of p63 EEC syndrome.

Soares E, Xu Q, Li Q, Qu J, Zheng Y, Raeven HHM, Brandao KO, Petit I, van den Akker WMR, van Heeringen SJ, Aberdam D, Tang F, Zhou H.

Proc Natl Acad Sci U S A. 2019 Aug 27;116(35):17361-17370. doi: 10.1073/pnas.1908180116. Epub 2019 Aug 14.

PMID:
31413199
2.

WDR5, BRCA1, and BARD1 Co-regulate the DNA Damage Response and Modulate the Mesenchymal-to-Epithelial Transition during Early Reprogramming.

Peñalosa-Ruiz G, Bousgouni V, Gerlach JP, Waarlo S, van de Ven JV, Veenstra TE, Silva JCR, van Heeringen SJ, Bakal C, Mulder KW, Veenstra GJC.

Stem Cell Reports. 2019 Apr 9;12(4):743-756. doi: 10.1016/j.stemcr.2019.02.006. Epub 2019 Mar 14.

3.

Amphioxus functional genomics and the origins of vertebrate gene regulation.

Marlétaz F, Firbas PN, Maeso I, Tena JJ, Bogdanovic O, Perry M, Wyatt CDR, de la Calle-Mustienes E, Bertrand S, Burguera D, Acemel RD, van Heeringen SJ, Naranjo S, Herrera-Ubeda C, Skvortsova K, Jimenez-Gancedo S, Aldea D, Marquez Y, Buono L, Kozmikova I, Permanyer J, Louis A, Albuixech-Crespo B, Le Petillon Y, Leon A, Subirana L, Balwierz PJ, Duckett PE, Farahani E, Aury JM, Mangenot S, Wincker P, Albalat R, Benito-Gutiérrez È, Cañestro C, Castro F, D'Aniello S, Ferrier DEK, Huang S, Laudet V, Marais GAB, Pontarotti P, Schubert M, Seitz H, Somorjai I, Takahashi T, Mirabeau O, Xu A, Yu JK, Carninci P, Martinez-Morales JR, Crollius HR, Kozmik Z, Weirauch MT, Garcia-Fernàndez J, Lister R, Lenhard B, Holland PWH, Escriva H, Gómez-Skarmeta JL, Irimia M.

Nature. 2018 Dec;564(7734):64-70. doi: 10.1038/s41586-018-0734-6. Epub 2018 Nov 21.

4.

Splicing and Chromatin Factors Jointly Regulate Epidermal Differentiation.

Tanis SEJ, Jansen PWTC, Zhou H, van Heeringen SJ, Vermeulen M, Kretz M, Mulder KW.

Cell Rep. 2018 Oct 30;25(5):1292-1303.e5. doi: 10.1016/j.celrep.2018.10.017.

5.

Dendritic Cells Actively Limit Interleukin-10 Production Under Inflammatory Conditions via DC-SCRIPT and Dual-Specificity Phosphatase 4.

Søndergaard JN, van Heeringen SJ, Looman MWG, Tang C, Triantis V, Louche P, Janssen-Megens EM, Sieuwerts AM, Martens JWM, Logie C, Stunnenberg HG, Ansems M, Adema GJ.

Front Immunol. 2018 Jun 22;9:1420. doi: 10.3389/fimmu.2018.01420. eCollection 2018.

6.

MTF2 recruits Polycomb Repressive Complex 2 by helical-shape-selective DNA binding.

Perino M, van Mierlo G, Karemaker ID, van Genesen S, Vermeulen M, Marks H, van Heeringen SJ, Veenstra GJC.

Nat Genet. 2018 Jul;50(7):1002-1010. doi: 10.1038/s41588-018-0134-8. Epub 2018 May 28.

PMID:
29808031
7.

Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development.

Toenhake CG, Fraschka SA, Vijayabaskar MS, Westhead DR, van Heeringen SJ, Bártfai R.

Cell Host Microbe. 2018 Apr 11;23(4):557-569.e9. doi: 10.1016/j.chom.2018.03.007.

8.

Regulatory remodeling in the allo-tetraploid frog Xenopus laevis.

Elurbe DM, Paranjpe SS, Georgiou G, van Kruijsbergen I, Bogdanovic O, Gibeaux R, Heald R, Lister R, Huynen MA, van Heeringen SJ, Veenstra GJC.

Genome Biol. 2017 Oct 24;18(1):198. doi: 10.1186/s13059-017-1335-7.

9.

p63 exerts spatio-temporal control of palatal epithelial cell fate to prevent cleft palate.

Richardson R, Mitchell K, Hammond NL, Mollo MR, Kouwenhoven EN, Wyatt ND, Donaldson IJ, Zeef L, Burgis T, Blance R, van Heeringen SJ, Stunnenberg HG, Zhou H, Missero C, Romano RA, Sinha S, Dixon MJ, Dixon J.

PLoS Genet. 2017 Jun 12;13(6):e1006828. doi: 10.1371/journal.pgen.1006828. eCollection 2017 Jun.

10.

Antisense transcription of the myotonic dystrophy locus yields low-abundant RNAs with and without (CAG)n repeat.

Gudde AEEG, van Heeringen SJ, de Oude AI, van Kessel IDG, Estabrook J, Wang ET, Wieringa B, Wansink DG.

RNA Biol. 2017 Oct 3;14(10):1374-1388. doi: 10.1080/15476286.2017.1279787. Epub 2017 Jan 19.

11.

β-Glucan Reverses the Epigenetic State of LPS-Induced Immunological Tolerance.

Novakovic B, Habibi E, Wang SY, Arts RJW, Davar R, Megchelenbrink W, Kim B, Kuznetsova T, Kox M, Zwaag J, Matarese F, van Heeringen SJ, Janssen-Megens EM, Sharifi N, Wang C, Keramati F, Schoonenberg V, Flicek P, Clarke L, Pickkers P, Heath S, Gut I, Netea MG, Martens JHA, Logie C, Stunnenberg HG.

Cell. 2016 Nov 17;167(5):1354-1368.e14. doi: 10.1016/j.cell.2016.09.034.

12.

Genome evolution in the allotetraploid frog Xenopus laevis.

Session AM, Uno Y, Kwon T, Chapman JA, Toyoda A, Takahashi S, Fukui A, Hikosaka A, Suzuki A, Kondo M, van Heeringen SJ, Quigley I, Heinz S, Ogino H, Ochi H, Hellsten U, Lyons JB, Simakov O, Putnam N, Stites J, Kuroki Y, Tanaka T, Michiue T, Watanabe M, Bogdanovic O, Lister R, Georgiou G, Paranjpe SS, van Kruijsbergen I, Shu S, Carlson J, Kinoshita T, Ohta Y, Mawaribuchi S, Jenkins J, Grimwood J, Schmutz J, Mitros T, Mozaffari SV, Suzuki Y, Haramoto Y, Yamamoto TS, Takagi C, Heald R, Miller K, Haudenschild C, Kitzman J, Nakayama T, Izutsu Y, Robert J, Fortriede J, Burns K, Lotay V, Karimi K, Yasuoka Y, Dichmann DS, Flajnik MF, Houston DW, Shendure J, DuPasquier L, Vize PD, Zorn AM, Ito M, Marcotte EM, Wallingford JB, Ito Y, Asashima M, Ueno N, Matsuda Y, Veenstra GJ, Fujiyama A, Harland RM, Taira M, Rokhsar DS.

Nature. 2016 Oct 20;538(7625):336-343. doi: 10.1038/nature19840.

13.

Genomic organization and modulation of gene expression of the TGF-β and FGF pathways in the allotetraploid frog Xenopus laevis.

Suzuki A, Yoshida H, van Heeringen SJ, Takebayashi-Suzuki K, Veenstra GJC, Taira M.

Dev Biol. 2017 Jun 15;426(2):336-359. doi: 10.1016/j.ydbio.2016.09.016. Epub 2016 Sep 28.

14.

ChIP-seq Data Processing for PcG Proteins and Associated Histone Modifications.

Bogdanovic O, van Heeringen SJ.

Methods Mol Biol. 2016;1480:37-53. doi: 10.1007/978-1-4939-6380-5_4.

PMID:
27659973
15.

Heterochromatic histone modifications at transposons in Xenopus tropicalis embryos.

van Kruijsbergen I, Hontelez S, Elurbe DM, van Heeringen SJ, Huynen MA, Veenstra GJC.

Dev Biol. 2017 Jun 15;426(2):460-471. doi: 10.1016/j.ydbio.2016.08.031. Epub 2016 Sep 14.

16.

fluff: exploratory analysis and visualization of high-throughput sequencing data.

Georgiou G, van Heeringen SJ.

PeerJ. 2016 Jul 19;4:e2209. doi: 10.7717/peerj.2209. eCollection 2016.

17.

Erratum: Embryonic transcription is controlled by maternally defined chromatin state.

Hontelez S, van Kruijsbergen I, Georgiou G, van Heeringen SJ, Bogdanovic O, Lister R, Veenstra GJ.

Nat Commun. 2016 Jul 5;7:12208. doi: 10.1038/ncomms12208. No abstract available.

18.

Nitrogen and phosphorus uptake rates of different species from a coral reef community after a nutrient pulse.

den Haan J, Huisman J, Brocke HJ, Goehlich H, Latijnhouwers KR, van Heeringen S, Honcoop SA, Bleyenberg TE, Schouten S, Cerli C, Hoitinga L, Vermeij MJ, Visser PM.

Sci Rep. 2016 Jun 29;6:28821. doi: 10.1038/srep28821.

19.

Normal formation of a vertebrate body plan and loss of tissue maintenance in the absence of ezh2.

San B, Chrispijn ND, Wittkopp N, van Heeringen SJ, Lagendijk AK, Aben M, Bakkers J, Ketting RF, Kamminga LM.

Sci Rep. 2016 May 5;6:24658. doi: 10.1038/srep24658.

20.

Embryonic transcription is controlled by maternally defined chromatin state.

Hontelez S, van Kruijsbergen I, Georgiou G, van Heeringen SJ, Bogdanovic O, Lister R, Veenstra GJC.

Nat Commun. 2015 Dec 18;6:10148. doi: 10.1038/ncomms10148. Erratum in: Nat Commun. 2016 Jul 05;7:12208.

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