26. 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. bioRXiv, doi: https://doi.org/10.1101/2025.01.21.634156

25. 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. PMCID PMC10672805, 2023.11.24, eLife, doi.org/10.7554/elife.89493

24. Ninova M, Holmes H, Lomenick B, Fejes-Tóth K, Aravin AA. (2023) Pervasive SUMOylation of heterochromatin and piRNA pathway proteins. PMCID: PMC10363806, 2023.05.18, Cell Genomics, doi.org/10.1016/j.xgen.2023.100329

23. Luo Y, He P, Kanrar N, Fejes Toth K, Aravin AA. (2023) Maternally inherited siRNAs initiate piRNA cluster formation. PMCID: PMC10846595, 2023.11.02, Molecular Cell, doi.org/10.1016/j.molcel.2023.09.033

22. Galton R, Fejes Toth K, Bronner M (2022) Co-option of the piRNA pathway to regulate neural crest specification. Science Advances, Aug 12;8(32):eabn1441. PMCID: PMC9365273 DOI: 10.1126/sciadv.abn1441 (co-corresponding author)

21. 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. 2021 Jul 1;12(1):4061. doi: 10.1038/s41467-021-24351-x. PMID: 34210982

20. 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. Molecular Cell, 77(3):571-585.e4. PMCID: PMC7007874. (co-corresponding author)

19. 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 eu- and heterochromatic gene expression via establishment of H3K9 trimethylation and negative feedback regulation, Molecular Cell, 77(3):556-570.e6. PMCID: PMC7007863.

18. 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. PMCID: PMC5695087.

17. 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.

16. 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.

15. 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.

14. 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. This paper was reviewed by Faculty 1000.

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12. ENCODE Project Consortium (2012). Landscape of transcription in human cells. Nature 489(7414):101-8.

11. 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.

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9. 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.

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7. Aravin AA, Sachidanandam R, Girard A, Fejes Tóth K, Hannon GJ. (2007). Developmentally regulated piRNA clusters implicate MILI in transposon control, Science 316, 744-7.

6. Görisch SM, Wachsmuth M, Fejes Tóth K, Lichter P, and Rippe K. (2005). Histone acetylation increases chromatin accessibility, J. Cell Sci. 118, 5825-34.

5. 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, 34063-72.

4. 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.

3. 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, 15690–15699.

2. 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, 4277-4287.

1. 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, 4012-4022.