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Items: 1 to 50 of 95

1.

Resilience to aging in the regeneration-capable flatworm Macrostomum lignano.

Mouton S, Grudniewska M, Glazenburg L, Guryev V, Berezikov E.

Aging Cell. 2018 Jun;17(3):e12739. doi: 10.1111/acel.12739. Epub 2018 Feb 28.

2.

Modeling Human Cardiac Hypertrophy in Stem Cell-Derived Cardiomyocytes.

Ovchinnikova E, Hoes M, Ustyantsev K, Bomer N, de Jong TV, van der Mei H, Berezikov E, van der Meer P.

Stem Cell Reports. 2018 Mar 13;10(3):794-807. doi: 10.1016/j.stemcr.2018.01.016. Epub 2018 Feb 15.

3.

A novel flatworm-specific gene implicated in reproduction in Macrostomum lignano.

Grudniewska M, Mouton S, Grelling M, Wolters AHG, Kuipers J, Giepmans BNG, Berezikov E.

Sci Rep. 2018 Feb 16;8(1):3192. doi: 10.1038/s41598-018-21107-4.

4.

Efficient transgenesis and annotated genome sequence of the regenerative flatworm model Macrostomum lignano.

Wudarski J, Simanov D, Ustyantsev K, de Mulder K, Grelling M, Grudniewska M, Beltman F, Glazenburg L, Demircan T, Wunderer J, Qi W, Vizoso DB, Weissert PM, Olivieri D, Mouton S, Guryev V, Aboobaker A, Schärer L, Ladurner P, Berezikov E.

Nat Commun. 2017 Dec 14;8(1):2120. doi: 10.1038/s41467-017-02214-8.

5.

Towards the identification of ancestrally shared regenerative mechanisms across the Metazoa: A Transcriptomic case study in the Demosponge Halisarca caerulea.

Kenny NJ, de Goeij JM, de Bakker DM, Whalen CG, Berezikov E, Riesgo A.

Mar Genomics. 2018 Feb;37:135-147. doi: 10.1016/j.margen.2017.11.001. Epub 2017 Dec 6.

PMID:
29198427
6.

Accumulation of 5-oxoproline in myocardial dysfunction and the protective effects of OPLAH.

van der Pol A, Gil A, Silljé HHW, Tromp J, Ovchinnikova ES, Vreeswijk-Baudoin I, Hoes M, Domian IJ, van de Sluis B, van Deursen JM, Voors AA, van Veldhuisen DJ, van Gilst WH, Berezikov E, van der Harst P, de Boer RA, Bischoff R, van der Meer P.

Sci Transl Med. 2017 Nov 8;9(415). pii: eaam8574. doi: 10.1126/scitranslmed.aam8574.

PMID:
29118264
7.
8.

Organ specific gene expression in the regenerating tail of Macrostomum lignano.

Lengerer B, Wunderer J, Pjeta R, Carta G, Kao D, Aboobaker A, Beisel C, Berezikov E, Salvenmoser W, Ladurner P.

Dev Biol. 2018 Jan 15;433(2):448-460. doi: 10.1016/j.ydbio.2017.07.021. Epub 2017 Jul 28.

9.

Rodent heart failure models do not reflect the human circulating microRNA signature in heart failure.

Vegter EL, Ovchinnikova ES, Silljé HHW, Meems LMG, van der Pol A, van der Velde AR, Berezikov E, Voors AA, de Boer RA, van der Meer P.

PLoS One. 2017 May 5;12(5):e0177242. doi: 10.1371/journal.pone.0177242. eCollection 2017.

10.

Guanine quadruplex structures localize to heterochromatin.

Hoffmann RF, Moshkin YM, Mouton S, Grzeschik NA, Kalicharan RD, Kuipers J, Wolters AHG, Nishida K, Romashchenko AV, Postberg J, Lipps H, Berezikov E, Sibon OCM, Giepmans BNG, Lansdorp PM.

Nucleic Acids Res. 2017 Jun 2;45(10):6253. doi: 10.1093/nar/gkx301. No abstract available.

11.

Low circulating microRNA levels in heart failure patients are associated with atherosclerotic disease and cardiovascular-related rehospitalizations.

Vegter EL, Ovchinnikova ES, van Veldhuisen DJ, Jaarsma T, Berezikov E, van der Meer P, Voors AA.

Clin Res Cardiol. 2017 Aug;106(8):598-609. doi: 10.1007/s00392-017-1096-z. Epub 2017 Mar 14.

12.

Transcriptional signatures of somatic neoblasts and germline cells in Macrostomum lignano.

Grudniewska M, Mouton S, Simanov D, Beltman F, Grelling M, de Mulder K, Arindrarto W, Weissert PM, van der Elst S, Berezikov E.

Elife. 2016 Dec 20;5. pii: e20607. doi: 10.7554/eLife.20607.

13.

MicroRNA mir-34 provides robustness to environmental stress response via the DAF-16 network in C. elegans.

Isik M, Blackwell TK, Berezikov E.

Sci Rep. 2016 Dec 1;6:36766. doi: 10.1038/srep36766.

14.

Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants.

Dueck A, Evers M, Henz SR, Unger K, Eichner N, Merkl R, Berezikov E, Engelmann JC, Weigel D, Wenzl S, Meister G.

BMC Genomics. 2016 Nov 2;17(1):853.

15.

Use of biomarkers to establish potential role and function of circulating microRNAs in acute heart failure.

Vegter EL, Schmitter D, Hagemeijer Y, Ovchinnikova ES, van der Harst P, Teerlink JR, O'Connor CM, Metra M, Davison BA, Bloomfield D, Cotter G, Cleland JG, Givertz MM, Ponikowski P, van Veldhuisen DJ, van der Meer P, Berezikov E, Voors AA, Khan MA.

Int J Cardiol. 2016 Dec 1;224:231-239. doi: 10.1016/j.ijcard.2016.09.010. Epub 2016 Sep 11.

16.

Evidence for Karyotype Polymorphism in the Free-Living Flatworm, Macrostomum lignano, a Model Organism for Evolutionary and Developmental Biology.

Zadesenets KS, Vizoso DB, Schlatter A, Konopatskaia ID, Berezikov E, Schärer L, Rubtsov NB.

PLoS One. 2016 Oct 18;11(10):e0164915. doi: 10.1371/journal.pone.0164915. eCollection 2016.

17.

Profiling of adhesive-related genes in the freshwater cnidarian Hydra magnipapillata by transcriptomics and proteomics.

Rodrigues M, Ostermann T, Kremeser L, Lindner H, Beisel C, Berezikov E, Hobmayer B, Ladurner P.

Biofouling. 2016 Oct;32(9):1115-1129.

18.

Spatially Resolved Genome-wide Transcriptional Profiling Identifies BMP Signaling as Essential Regulator of Zebrafish Cardiomyocyte Regeneration.

Wu CC, Kruse F, Vasudevarao MD, Junker JP, Zebrowski DC, Fischer K, Noël ES, Grün D, Berezikov E, Engel FB, van Oudenaarden A, Weidinger G, Bakkers J.

Dev Cell. 2016 Jan 11;36(1):36-49. doi: 10.1016/j.devcel.2015.12.010. Epub 2015 Dec 31.

19.

MicroRNAs relate to early worsening of renal function in patients with acute heart failure.

Bruno N, ter Maaten JM, Ovchinnikova ES, Vegter EL, Valente MA, van der Meer P, de Boer RA, van der Harst P, Schmitter D, Metra M, O'Connor CM, Ponikowski P, Teerlink JR, Cotter G, Davison B, Cleland JG, Givertz MM, Bloomfield DM, Dittrich HC, Pinto YM, van Veldhuisen DJ, Hillege HL, Berezikov E, Voors AA.

Int J Cardiol. 2016 Jan 15;203:564-9. doi: 10.1016/j.ijcard.2015.10.217. Epub 2015 Nov 11.

PMID:
26569364
20.

miRNA Nomenclature: A View Incorporating Genetic Origins, Biosynthetic Pathways, and Sequence Variants.

Desvignes T, Batzel P, Berezikov E, Eilbeck K, Eppig JT, McAndrews MS, Singer A, Postlethwait JH.

Trends Genet. 2015 Nov;31(11):613-626. doi: 10.1016/j.tig.2015.09.002. Epub 2015 Oct 8. Review.

21.

Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster.

Chereji RV, Kan TW, Grudniewska MK, Romashchenko AV, Berezikov E, Zhimulev IF, Guryev V, Morozov AV, Moshkin YM.

Nucleic Acids Res. 2016 Feb 18;44(3):1036-51. doi: 10.1093/nar/gkv978. Epub 2015 Oct 1.

22.

Guanine quadruplex structures localize to heterochromatin.

Hoffmann RF, Moshkin YM, Mouton S, Grzeschik NA, Kalicharan RD, Kuipers J, Wolters AH, Nishida K, Romashchenko AV, Postberg J, Lipps H, Berezikov E, Sibon OC, Giepmans BN, Lansdorp PM.

Nucleic Acids Res. 2016 Jan 8;44(1):152-63. doi: 10.1093/nar/gkv900. Epub 2015 Sep 17.

23.

Signature of circulating microRNAs in patients with acute heart failure.

Ovchinnikova ES, Schmitter D, Vegter EL, Ter Maaten JM, Valente MA, Liu LC, van der Harst P, Pinto YM, de Boer RA, Meyer S, Teerlink JR, O'Connor CM, Metra M, Davison BA, Bloomfield DM, Cotter G, Cleland JG, Mebazaa A, Laribi S, Givertz MM, Ponikowski P, van der Meer P, van Veldhuisen DJ, Voors AA, Berezikov E.

Eur J Heart Fail. 2016 Apr;18(4):414-23. doi: 10.1002/ejhf.332. Epub 2015 Sep 8.

24.

miR-378a-3p modulates tamoxifen sensitivity in breast cancer MCF-7 cells through targeting GOLT1A.

Ikeda K, Horie-Inoue K, Ueno T, Suzuki T, Sato W, Shigekawa T, Osaki A, Saeki T, Berezikov E, Mano H, Inoue S.

Sci Rep. 2015 Aug 10;5:13170. doi: 10.1038/srep13170.

25.

Positional RNA-Seq identifies candidate genes for phenotypic engineering of sexual traits.

Arbore R, Sekii K, Beisel C, Ladurner P, Berezikov E, Schärer L.

Front Zool. 2015 Jul 3;12:14. doi: 10.1186/s12983-015-0106-0. eCollection 2015.

26.

Genome-wide RNA Tomography in the zebrafish embryo.

Junker JP, Noël ES, Guryev V, Peterson KA, Shah G, Huisken J, McMahon AP, Berezikov E, Bakkers J, van Oudenaarden A.

Cell. 2014 Oct 23;159(3):662-75. doi: 10.1016/j.cell.2014.09.038.

27.

Systemic miRNA-7 delivery inhibits tumor angiogenesis and growth in murine xenograft glioblastoma.

Babae N, Bourajjaj M, Liu Y, Van Beijnum JR, Cerisoli F, Scaria PV, Verheul M, Van Berkel MP, Pieters EH, Van Haastert RJ, Yousefi A, Mastrobattista E, Storm G, Berezikov E, Cuppen E, Woodle M, Schaapveld RQ, Prevost GP, Griffioen AW, Van Noort PI, Schiffelers RM.

Oncotarget. 2014 Aug 30;5(16):6687-700.

28.

The ctenophore genome and the evolutionary origins of neural systems.

Moroz LL, Kocot KM, Citarella MR, Dosung S, Norekian TP, Povolotskaya IS, Grigorenko AP, Dailey C, Berezikov E, Buckley KM, Ptitsyn A, Reshetov D, Mukherjee K, Moroz TP, Bobkova Y, Yu F, Kapitonov VV, Jurka J, Bobkov YV, Swore JJ, Girardo DO, Fodor A, Gusev F, Sanford R, Bruders R, Kittler E, Mills CE, Rast JP, Derelle R, Solovyev VV, Kondrashov FA, Swalla BJ, Sweedler JV, Rogaev EI, Halanych KM, Kohn AB.

Nature. 2014 Jun 5;510(7503):109-14. doi: 10.1038/nature13400. Epub 2014 May 21.

29.

Biological adhesion of the flatworm Macrostomum lignano relies on a duo-gland system and is mediated by a cell type-specific intermediate filament protein.

Lengerer B, Pjeta R, Wunderer J, Rodrigues M, Arbore R, Schärer L, Berezikov E, Hess MW, Pfaller K, Egger B, Obwegeser S, Salvenmoser W, Ladurner P.

Front Zool. 2014 Feb 12;11(1):12. doi: 10.1186/1742-9994-11-12.

30.

Sex allocation adjustment to mating group size in a simultaneous hermaphrodite.

Janicke T, Marie-Orleach L, De Mulder K, Berezikov E, Ladurner P, Vizoso DB, Schärer L.

Evolution. 2013 Nov;67(11):3233-42. doi: 10.1111/evo.12189. Epub 2013 Jul 10.

PMID:
24152005
31.

Novel small RNA expression libraries uncover hsa-miR-30b and hsa-miR-30c as important factors in anoikis resistance.

Moreno-Mateos MA, Barragán V, Torres B, Rodríguez-Mateo C, Méndez-Vidal C, Berezikov E, Mudduluru G, Allgayer H, Pintor-Toro JA.

RNA. 2013 Dec;19(12):1711-25. doi: 10.1261/rna.039461.113. Epub 2013 Oct 15.

32.

The Hippo pathway regulates stem cells during homeostasis and regeneration of the flatworm Macrostomum lignano.

Demircan T, Berezikov E.

Stem Cells Dev. 2013 Aug 1;22(15):2174-85. doi: 10.1089/scd.2013.0006. Epub 2013 Apr 30.

PMID:
23495768
33.

A deep sequencing approach to uncover the miRNOME in the human heart.

Leptidis S, El Azzouzi H, Lok SI, de Weger R, Olieslagers S, Kisters N, Silva GJ, Heymans S, Cuppen E, Berezikov E, De Windt LJ, da Costa Martins P.

PLoS One. 2013;8(2):e57800. doi: 10.1371/journal.pone.0057800. Epub 2013 Feb 27. Erratum in: PLoS One. 2013;8(6). doi:10.1371/annotation/e33f9763-3385-42c7-b31e-d433dc8e499a. Olieslagers, Serv [corrected to Olieslagers, Servé].

34.

Mesodermal gene expression in the acoel Isodiametra pulchra indicates a low number of mesodermal cell types and the endomesodermal origin of the gonads.

Chiodin M, Børve A, Berezikov E, Ladurner P, Martinez P, Hejnol A.

PLoS One. 2013;8(2):e55499. doi: 10.1371/journal.pone.0055499. Epub 2013 Feb 6.

35.

piRNA dynamics in divergent zebrafish strains reveal long-lasting maternal influence on zygotic piRNA profiles.

Kaaij LJ, Hoogstrate SW, Berezikov E, Ketting RF.

RNA. 2013 Mar;19(3):345-56. doi: 10.1261/rna.036400.112. Epub 2013 Jan 18.

36.

Biolistic transformation of Caenorhabditis elegans.

Isik M, Berezikov E.

Methods Mol Biol. 2013;940:77-86. doi: 10.1007/978-1-62703-110-3_7.

PMID:
23104335
37.

The Flatworm Macrostomum lignano Is a Powerful Model Organism for Ion Channel and Stem Cell Research.

Simanov D, Mellaart-Straver I, Sormacheva I, Berezikov E.

Stem Cells Int. 2012;2012:167265. Epub 2012 Sep 11.

38.

Expression pattern analysis of microRNAs in Caenorhabditis elegans.

Isik M, Berezikov E.

Methods Mol Biol. 2013;936:129-41.

PMID:
23007505
39.

Extremely stable Piwi-induced gene silencing in Caenorhabditis elegans.

Luteijn MJ, van Bergeijk P, Kaaij LJ, Almeida MV, Roovers EF, Berezikov E, Ketting RF.

EMBO J. 2012 Aug 15;31(16):3422-30. doi: 10.1038/emboj.2012.213. Epub 2012 Jul 31.

40.

microRNAs associated with the different human Argonaute proteins.

Dueck A, Ziegler C, Eichner A, Berezikov E, Meister G.

Nucleic Acids Res. 2012 Oct;40(19):9850-62. doi: 10.1093/nar/gks705. Epub 2012 Jul 25.

41.

Differential impact of the HEN1 homolog HENN-1 on 21U and 26G RNAs in the germline of Caenorhabditis elegans.

Kamminga LM, van Wolfswinkel JC, Luteijn MJ, Kaaij LJ, Bagijn MP, Sapetschnig A, Miska EA, Berezikov E, Ketting RF.

PLoS Genet. 2012;8(7):e1002702. doi: 10.1371/journal.pgen.1002702. Epub 2012 Jul 19.

42.

Controlling miRNA regulation in disease.

Gommans WM, Berezikov E.

Methods Mol Biol. 2012;822:1-18. doi: 10.1007/978-1-61779-427-8_1. Review.

PMID:
22144188
43.

Evolution of microRNA diversity and regulation in animals.

Berezikov E.

Nat Rev Genet. 2011 Nov 18;12(12):846-60. doi: 10.1038/nrg3079. Review.

PMID:
22094948
44.

Functional microRNA screening using a comprehensive lentiviral human microRNA expression library.

Poell JB, van Haastert RJ, Cerisoli F, Bolijn AS, Timmer LM, Diosdado-Calvo B, Meijer GA, van Puijenbroek AA, Berezikov E, Schaapveld RQ, Cuppen E.

BMC Genomics. 2011 Nov 3;12:546. doi: 10.1186/1471-2164-12-546.

45.

Neuronal activity regulates hippocampal miRNA expression.

Eacker SM, Keuss MJ, Berezikov E, Dawson VL, Dawson TM.

PLoS One. 2011;6(10):e25068. doi: 10.1371/journal.pone.0025068. Epub 2011 Oct 3.

46.

Sample preparation for small RNA massive parallel sequencing.

Gommans WM, Berezikov E.

Methods Mol Biol. 2012;786:167-78. doi: 10.1007/978-1-61779-292-2_10.

PMID:
21938626
47.

Evidence for post-transcriptional regulation of clustered microRNAs in Drosophila.

Ryazansky SS, Gvozdev VA, Berezikov E.

BMC Genomics. 2011 Jul 19;12:371. doi: 10.1186/1471-2164-12-371.

48.

Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.

Huang HY, Houwing S, Kaaij LJ, Meppelink A, Redl S, Gauci S, Vos H, Draper BW, Moens CB, Burgering BM, Ladurner P, Krijgsveld J, Berezikov E, Ketting RF.

EMBO J. 2011 Jul 8;30(16):3298-308. doi: 10.1038/emboj.2011.228.

49.

Boule-like genes regulate male and female gametogenesis in the flatworm Macrostomum lignano.

Kuales G, De Mulder K, Glashauser J, Salvenmoser W, Takashima S, Hartenstein V, Berezikov E, Salzburger W, Ladurner P.

Dev Biol. 2011 Sep 1;357(1):117-32. doi: 10.1016/j.ydbio.2011.06.030. Epub 2011 Jun 28.

50.

Identification of functional elements and regulatory circuits by Drosophila modENCODE.

modENCODE Consortium, Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L, Lin MF, Washietl S, Arshinoff BI, Ay F, Meyer PE, Robine N, Washington NL, Di Stefano L, Berezikov E, Brown CD, Candeias R, Carlson JW, Carr A, Jungreis I, Marbach D, Sealfon R, Tolstorukov MY, Will S, Alekseyenko AA, Artieri C, Booth BW, Brooks AN, Dai Q, Davis CA, Duff MO, Feng X, Gorchakov AA, Gu T, Henikoff JG, Kapranov P, Li R, MacAlpine HK, Malone J, Minoda A, Nordman J, Okamura K, Perry M, Powell SK, Riddle NC, Sakai A, Samsonova A, Sandler JE, Schwartz YB, Sher N, Spokony R, Sturgill D, van Baren M, Wan KH, Yang L, Yu C, Feingold E, Good P, Guyer M, Lowdon R, Ahmad K, Andrews J, Berger B, Brenner SE, Brent MR, Cherbas L, Elgin SC, Gingeras TR, Grossman R, Hoskins RA, Kaufman TC, Kent W, Kuroda MI, Orr-Weaver T, Perrimon N, Pirrotta V, Posakony JW, Ren B, Russell S, Cherbas P, Graveley BR, Lewis S, Micklem G, Oliver B, Park PJ, Celniker SE, Henikoff S, Karpen GH, Lai EC, MacAlpine DM, Stein LD, White KP, Kellis M.

Science. 2010 Dec 24;330(6012):1787-97. doi: 10.1126/science.1198374. Epub 2010 Dec 22.

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