Tang Q, Zhang A, Sullivan M, Fejes Tóth K, Aravin AA. (2025) Auto-methylation of the histone methyltransferase SetDB I at its histone-mimic motifs ensures the spreading and maintenance of heterochromatin. doi: https://doi.org/10.1101/2025.01.21.634156 (preprint)

Godneeva B, Ninova M, Fejes Tóth K, Aravin AA. (2023) SUMOylation of Bonus, the Drosophila homolog of Transcription Intermediary Factor 1, safeguards germline identity by recruiting repressive chromatin complexes to silence tissue-specific genes. [Nov 24] eLife, doi.org/10.7554/elife.89493

Godneeva B, Fejes Tóth K, Quan B, Chou TF, Aravin AA. (2023) Impact of Germline Depletion of Bonus on Chromatin State in Drosophila Ovaries. Cells. 12(22) [Nov 15] doi: 10.3390/cells12222629.

Ninova M, Holmes H, Lomenick B, Fejes-Tóth K, Aravin AA. (2023) Pervasive SUMOylation of heterochromatin and piRNA pathway proteins. Cell Gen, 3(7) [Jul 12] doi.org/10.1016/j.xgen.2023.100329

Luo Y, He P, Kanrar N, Fejes Toth K, Aravin AA. (2023)  Maternally inherited siRNAs initiate piRNA cluster formation. Mol Cell, 83(21) 3835-3851 E7 [Nov 2] doi.org/10.1016/j.molcel.2023.09.033

Galton R, Fejes Toth K, Bronner M (2022) Co-option of the piRNA pathway to regulate neural crest specification. Sci Advances, 8(32):eabn1441. [Aug 10] doi: 10.1126/sciadv.abn1441 (co-corresponding author)

Huang X, Hu H, Webster A, Zou F, Du J, Patel DJ, Sachidanandam R, Toth KF, Aravin AA, Li S. (2021) Binding of guide piRNA triggers methylation of the unstructured N-terminal region of Aub leading to assembly of the piRNA amplification complex. Nat Commun. 12(1):4061. [Jul 1] doi: 10.1038/s41467-021-24351-x

Ninova M, Fejes Tóth K. (2020) New players on the piRNA field. Nat Str & Mol Bio, 27:777-779 [Aug 12] doi: 10.1038/s41594-020-0484-7

Ninova M, Chen YA, Godneeva B, Rogers AK, Luo Y, Fejes Tóth K and Aravin AA (2020) Su(var)2-10 and the SUMO pathway link piRNA-guided target recognition to chromatin silencing. Mol Cell, 77(3):571-585.e4. [Feb 6] doi: 10.1016/j.molcel.2019.11.012 (co-corresponding author)

Ninova M, Godneeva B, Chen YA, Luo Y, Prakash S, Jankovics F, Erdélyi M, Aravin AA and Fejes Tóth K. (2020) The SUMO ligase Su(var)2-10 controls hetero- and euchromatic gene expression via establishing H3K9 trimethylation and negative feedback regulation, Mol Cell, 77(3):556-570.e6. [Feb 6] doi: 10.1016/j.molcel.2019.09.033

Rogers AK, Situ K, Perkins EM, and Fejes Toth K. (2017) Zucchini-dependent piRNA processing is triggered by recruitment to the cytoplasmic processing machinery. Genes Dev. 31(18):1858-1869. [Sep 15] doi: 10.1101/gad.303214.117

Chen YC, Stuwe E, Luo Y, Ninova M, Le Thomas A, Rozhavskaya E, Li S, Vempati S, Laver JD, Patel DJ, Smibert CA, Lipshitz HD, Fejes Tóth K, Aravin AA. (2016) Cutoff Suppresses RNA Polymerase II Termination to Ensure Expression of piRNA Precursors. Mol Cell. 63(1):97-109. doi: 10.1016/j.molcel.2016.05.010

Marinov GK, Wang J, Handler D, Wold BJ, Weng Z, Hannon GJ, Aravin AA, Zamore PD, Brennecke J, Fejes Tóth K. (2015) Pitfalls of mapping high-throughput sequencing data to repetitive sequences: Piwi's genomic targets still not identified. Dev Cell. 32(6):765-71. [Mar 23] doi: 10.1016/j.devcel.2015.01.013

Le Thomas A, Stuwe E, Li S, Du J, Marinov G, Rozhkov N, Chen YC, Luo Y, Sachidanandam R, Fejes Toth K, Patel D, Aravin AA. (2014) Transgenerationally inherited piRNAs trigger piRNA biogenesis by changing the chromatin of piRNA clusters and inducing precursor processing. Genes Dev. 28(15):1667-80. [Aug 1] doi: 10.1101/gad.245514.114

Le Thomas, A, Rogers, AK, Webster, A, Marinov, GK, Liao, SE, Perkins, EM, Hur, JK, Aravin, AA and Fejes Toth K. (2013) Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state. Genes Dev. 27(4):390-9. [Feb 15] doi: 10.1101/gad.209841.112 This paper was reviewed by Faculty 1000.

ENCODE Project Consortium, (2012) An integrated encyclopedia of DNA elements in the human genome. Nature. 489(7414):57-74. [Sep 6] doi: 10.1038/nature11247

ENCODE Project Consortium (2012). Landscape of transcription in human cells. Nature 489(7414):101-8.[Sep 6] doi: 10.1038/nature11233

Caudron-Herger M, Müller-Ott K, Mallm JP, Marth C, Schmidt U, Fejes Tóth K and Rippe K. (2011). Coding RNAs with a non-coding function: maintenance of open chromatin structure. Nucleus. 2(5):410-24. [Sep-Oct] doi: 10.4161/nucl.2.5.17736

ENCODE Project Consortium, Myers RM, Stamatoyannopoulos J, Snyder M, Dunham I,  Hardison RC, Bernstein BE, Gingeras TR, Kent WJ, Birney E, Wold B, Crawford GE. (2011). A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol. 9(4):e1001046. [Apr] doi: 10.1371/journal.pbio.1001046

Fejes Tóth K, Sotirova V, Sachidanandam R, Gordon A, Hannon GJ, Kapranov P, Fossiac S, Willingham AT, Duttagupta R, Dumais E, Gingeras TR. (2009). Post-transcriptional processing generates a diversity of 5’-modified long and short RNAs. Nature. 457(7232):1028-32. [Feb 19] doi: 10.1038/nature07759

Aravin AA, Sachidanandam R, Bourc’his D, Schaefer C, Pezic D, Fejes Tóth K, Bestor T, Hannon GJ. (2008). A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice. Mol Cell. 31(6):785-99. [Sep 26] doi: 10.1016/j.molcel.2008.09.003

Aravin AA, Sachidanandam R, Girard A, Fejes Tóth K, Hannon GJ. (2007). Developmentally regulated piRNA clusters implicate MILI in transposon control. Science 316(5825), 744-7. [May 4] doi: 10.1126/science.1142612

Görisch SM, Wachsmuth M, Fejes Tóth K, Lichter P, and Rippe K. (2005). Histone acetylation increases chromatin accessibility. J. Cell Sci. 118(Pt 24):5825-34. [Dec 15] doi: 10.1242/jcs.02689

Kepert JF, Mazurkiewicz J, Heuvelman G, Fejes Tóth K & Rippe K. (2005). NAP1 modulates  binding of linker histone H1 to chromatin and inducesan extended chromatin fiber conformation. J. Biol. Chem. 280(40):34063-72. [Oct 7] doi: 10.1074/jbc.M507322200

Lutzmann M, Kunze R, Stangl K, Stelter P, Fejes Tóth K, Boettcher B & Hurt E. (2004). Biochemical and structural analyses of the large nucleoporins Nup157, Nup188 and Nup192. J. Biol Chem, 280:15690-15699.

Fejes Tóth K, Mazurkiewicz J & Rippe K. (2004). Association states of the nucleosome assembly protein 1 and its complexes with histones. J. Biol Chem.280(16):15690-9 [Apr 22] doi: 10.1074/jbc.M413329200

Fejes Tóth K, Knoch TA, Wachsmuth M, Stöhr M, Frank-Stöhr M, Bacher CP, Müller G & Rippe K. (2004). Trichostatin A induced histone acetylation causes decondensation of interphase chromatin. J. Cell Sci. 117(Pt 18):4277-87. [Aug 15] doi: 10.1242/jcs.01293

Kepert JF, Fejes Tóth K, Caudron M, Mücke N, Langowski J & Rippe K. (2003). Conformation of reconstituted mononucleosomes and effect of linker histone H1 binding studied by scanning force microscopy. Biophys. J. 85(6):4012-22. [Dec] doi: 10.1016/S0006-3495(03)74815-2