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Gyenis A, Chang J, Demmers JJPG, Bruens ST, Barnhoorn S, Brandt R, Baar MP, Raseta M, Derks KWJ, Hoeijmakers JHJ, Pothof J. Genome-wide transcription stalling by DNA damage shapes the transcriptome in aging. Nature Genetics 2023 Feb;55(2):268-279, doi.org/10.1038/s41588-022-01279-6 2023. Epub 2023 Jan 19.

Hunold P*, Hoehne MN*, Kiljan M, van Ray O, Herter J, Herter-Sprie GS, Hänsel-Hertsch R. G-quadruplex DNA structures mediate non-autonomous instruction of breast tumour microenvironments. bioRxiv 2023 doi: 10.1101/2023.01.16.524243. *contributed equally

Martine de Boer; Maaike te Lintel Hekkert; Jiang Chang; Bibi S. van Thiel; Leonie Martens; Maxime M. Bos; Marion G.J. de Kleijnen; Yanto Ridwan; Yanti Octavia; Elza D. van Deel; Lau A. Blonden; Renata M.C. Brandt; Sander Barnhoorn; Paula K. Bautista-Niño; Ilona Krabbendam-Peters; Rianne Wolswinkel; Banafsheh Arshi; Mohsen Ghanbari; Christian Kupatt; Leon J. de Windt; A. H. Jan Danser; Ingrid van der Pluijm; Carol Ann Remme; Monika Stoll; Joris Pothof; Anton J.M. Roks; Maryam Kavousi; Jeroen Essers; Jolanda van der Velden; Jan H.J. Hoeijmakers; Dirk J. Duncker. DNA repair in cardiomyocytes is critical for maintaining cardiac function in mice. Aging Cell. 2023;00:e13768. doi: 10.1111/acel.13768 PMID: 36756698

Bertillot F, Miroshnikova YA, Wickström SA. (2022) SnapShot: Mechanotransduction in the nucleus. Cell 185, 3638-3638. Dupont S, Wickström SA. (2022) Mechanical regulation of chromatin and transcription. Nat Rev Genet. May 23. doi: 10.1038/s41576-022-00493-6

Soltanmohammadi, N., Wang, S., & Schumacher, B. (2022). Somatic PMK-1/p38 signaling links environmental stress to germ cell apoptosis and heritable euploidy. Nature communications, 13(1), 1-13.

Wang, S., Meyer, D.H. and Schumacher, B., (2022). Inheritance of paternal DNA damage by histone-mediated repair restriction. Nature, pp.1-10.

Vougioukalaki M, Demmers J, Vermeij WP, Baar M, Bruens S, Magaraki A, Kuijk E, Jager M, Merzouk S, Brandt RMC, Kouwenberg J, Van Boxtel R, Cuppen E, Pothof J, Hoeijmakers JHJ. Different responses to DNA damage determine ageing differences between organs. Aging Cell. 2022 Apr;21(4):e13562. doi: 10.1111/acel.13562. Epub 2022 Mar 4. PMID: 35246937

Koehler, F.C., Fu, C.Y., Spath, M.R., Hoyer-Allo, K.J.R., Bohl, K., Gobel, H., Lackmann, J.W., Grundmann, F., Osterholt, T., Gloistein, C., Steiner, J.D., Antebi, A., Benzing, T., Schermer, B., Schwarz, G., Burst, V., and Muller, R.U. (2022). A systematic analysis of diet-induced nephroprotection reveals overlapping changes in cysteine catabolism. Transl Res. 2022 Feb 18 (in press; PMID: 35189406; DOI: 10.1016/j.trsl.2022.02.003)

Koester J, Miroshnikova YA, Ghatak S, Chacón-Martínez CA, Morgner J, Li X, Atanassov I, Koch M, Bloch W, Bartusel M, Niessen CM, Rada-Iglesias A, Wickström SA.  (2021) Niche stiffening compromises stem cell potential during aging by reducing chromatin accessibility at bivalent promoters. Nat Cell Biol 7:771-781.

Miroshnikova YA, Wickström SA (2021) Mechanical forces in nuclear organization. Cold Spring Harb Perspect Biol.  Cold Spring Harb Perspect Biol. June 29. pii: a039685

Maki K, Nava MM, Villeneuve C, Chang M, Furukawa KS, Ushida T, Wickström SA. (2021) Hydrostatic pressure promotes chondrocyte quiescence and progenitor state through heterochromatin remodeling and suppression of replicative stress. J Cell Sci 134(2):jcs247643

Franz A, Valledor P, Ubieto-Capella P, Pilger D, Galarreta A, Lafarga V, Fernández-Llorente A, de la Vega-Barranco G, den Brave F, Hoppe T*, Fernandez-Capetillo O*, Lecona E* (2021) USP7 and VCPFAF1 define the SUMO/Ubiquitin landscape at the DNA replication fork. Cell Rep. 37:109819

Jachimowicz RD, Goergens J, Reinhardt HC. DNA double-strand break repair pathway choice - from basic biology to clinical exploitation.Cell Cycle 2019; 18(13): 1423-34.

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Hänsel-Hertsch R, Simeone A, Shea A, Hui WWI, Zyner KG, Marsico G, Rueda OM, Bruna A, Martin A, Zhang X, Adhikari S, Tannahill D, Caldas C, Balasubramanian S. Landscape of G-quadruplex DNA structural regions in breast cancer. Nat Genet. 2020 Sep;52(9):878-883. doi: 10.1038/s41588-020-0672-8. Epub 2020 Aug 3. PMID: 32747825

Nava MM, Miroshnikova YA, Biggs LC, Whitefield DB, Metge F, Boucas J, Vihinen H, Jokitalo E, Li X, García Arcos JM, Hoffmann B, Merkel R, Niessen CM, Dahl KN, Wickström SA. (2020) Heterochromatin-driven nuclear softening protects the genome against mechanical stress-induced damage Cell 181, 800-817 Highlighted by Cell Preview, Faculty of 1000

Wang, S., Meyer, D. H., & Schumacher, B. (2020). H3K4me2 regulates the recovery of protein biosynthesis and homeostasis following DNA damage. Nature Structural & Molecular Biology, 27(12), 1165-1177.

Albert MC, Brinkmann K, Pokrzywa W, Günther SD, Krönke M, Hoppe T*, Kashkar H* (2020) CHIP ubiquitylates NOXA and induces its lysosomal degradation in response to DNA damage. Cell Death Dis: 11: 740

Ou HL, Kim CS, Uszkoreit S, Wickström SA, Schumacher B (2019) Somatic Niche Cells Regulate the CEP-1/p53-Mediated DNA Damage Response in Primordial Germ Cells Dev Cell 50, 167-183

Jachimowicz RD, Beleggia F, Isensee J, et al. UBQLN4 Represses Homologous Recombination and Is Overexpressed in Aggressive Tumors. Cell 2019; 176(3): 505-19 e22.

Panier, S., Maric, M., Hewitt, G., Mason-Osann, E., Gali, H., Dai, A., ... & Boulton, S. J. (2019). SLX4IP antagonizes promiscuous BLM activity during ALT maintenance. Molecular cell, 76(1), 27-43.

Lans H, Hoeijmakers JHJ, Vermeulen W, Marteijn JA. The DNA damage response to transcription stress. Nat Rev Mol Cell Biol. 2019 Sep 26. doi: 10.1038/s41580-019-0169-4. PMID: 31558824.

Milanese C, Bombardieri CR, Sepe S, Barnhoorn S, Payán-Goméz C, Caruso D, Audano M, Pedretti S, Vermeij WP, Brandt RMC, Gyenis A, Wamelink MM, de Wit AS, Janssens RC, Leen R, van Kuilenburg ABP, Mitro N, Hoeijmakers JHJ, Mastroberardino PG. DNA damage and transcription stress cause ATP-mediated redesign of metabolism and potentiation of anti-oxidant buffering. Nat Commun. 2019 Oct 25;10(1):4887. doi: 10.1038/s41467-019-12640-5. PMID: 31653834

Jain, M., Kaiser, R.W.J., Bohl, K., Hoehne, M., Gobel, H., Bartram, M.P., Habbig, S., Muller, R.U., Fogo, A.B., Benzing, T., Schermer, B., Hopker, K., and Slaats, G.G. (2019). Inactivation of Apoptosis Antagonizing Transcription Factor in tubular epithelial cells induces DNA damage and nephronophthisis accumulation. Kidney Int 95, 846-858.

Kaiser, RWJ., Ignarski, M., Van Nostrand, EL., Frese, CK., Jain, M., Cukoski, S., Heinen, H., Schaechter, M., Seufert, L., Bunte, K., Frommolt, P., Keller, P., Helm, M., Bohl, K., Höhne, M., Schermer, B., Benzing, T., Höpker, K., Dieterich, C., Yeo, GW., Müller, RU., Fabretti, F. (2019). A protein-RNA interaction atlas of the ribosome biogenesis factor AATF. Sci Rep 9, 1171.

Hänsel-Hertsch R, Spiegel J, Marsico G, Tannahill D, Balasubramanian S. Genome-wide mapping of endogenous G-quadruplex DNA structures by chromatin immunoprecipitation and high-throughput sequencing. Nat Protoc. 2018 Mar;13(3):551-564. doi: 10.1038/nprot.2017.150. Epub 2018 Feb 22. PMID: 29470465

Welcker, D., Jain, M., Khurshid, S., Jokic, M., Hohne, M., Schmitt, A., Frommolt, P., Niessen, C.M., Spiro, J., Persigehl, T., Wittersheim, M., Buttner, R., Fanciulli, M., Schermer, B., Reinhardt, H.C., Benzing, T., and Hopker, K. (2018). AATF suppresses apoptosis, promotes proliferation and is critical for Kras-driven lung cancer. Oncogene 37, 1503-1518.

Hänsel-Hertsch R, Di Antonio M, Balasubramanian S. DNA G-quadruplexes in the human genome: detection, functions and therapeutic potential. Nat Rev Mol Cell Biol. 2017 May;18(5):279-284.doi: 10.1038/nrm.2017.3. Epub 2017 Feb 22. PMID: 28225080

Hänsel-Hertsch R, Beraldi D, Lensing SV, Marsico G, Zyner K, Parry A, Di Antonio M, Pike J, Kimura H, Narita M, Tannahill D, Balasubramanian S. G-quadruplex structures mark human regulatory chromatin. Nat Genet. 2016 Oct;48(10):1267-72. doi: 10.1038/ng.3662. Epub 2016 Sep 12. PMID: 27618450  

Le HQ, Ghatak S, Yeung CY, Tellkamp F, Günschmann C, Dieterich C, Yeroslaviz A, Habermann B, Pombo A, Niessen CM, Wickström SA. (2016). Mechanical regulation of transcription controls Polycomb-mediated gene silencing during lineage commitment. Nat Cell Biol. 18, 864-875. Highlighted by Nature Reviews Molecular Cell Biology, Faculty of 1000

Ackermann L, Schell M, Pokrzywa W, Kevei E, Gartner A, Schumacher B*, Hoppe T* (2016) E4 ligase specific ubiquitylation hubs coordinate DNA double strand break repair and apoptosis. Nat Struct Mol Biol. 23: 995-1002

Franz A, Pirson PA, Pilger D, Halder S, Achuthankutty D, Kashkar H, Ramadan K, Hoppe T (2016) Chromatin-associated degradation is defined by UBXN-3/FAF1 to safeguard DNA replication fork progression. Nat Commun. 7: 10612

Braun, F., Rinschen, M.M., Bartels, V., Frommolt, P., Habermann, B., Hoeijmakers, J.H., Schumacher, B., Dolle, M.E., Muller, R.U., Benzing, T., Schermer, B., and Kurschat, C.E. (2016). Altered lipid metabolism in the aging kidney identified by three layered omic analysis. Aging (Albany NY) 8, 441-457.

Brinkmann K, Schell M, and Hoppe T*, Kashkar H (2015) Regulation of the DNA damage response by ubiquitin conjugation. Front. Genet. 6: 98