Publications

Journal Article (1614)

2025
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Alfonso-Gonzalez, C.; Hilgers, V.: Elucidating the coordination of RNA processing using short-read and long-read RNA-sequencing methods. Nature Reviews Molecular Cell Biology (2025)
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Wiese, M.; Rodrigues, C. P.; Akbas, M. E.; Sun, Y.; Holz, H.; Greene, J. A. M.; Tsang, T. H.; Bella, C.; Ganter, K.; Stehle, T. et al.; Shvedunova, M.; Akhtar, A.: KANSL3 directs transcriptional programs essential for hepatic metabolism and differentiation. Life science alliance 8 (2025)
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Zhou, Y.; Shvedunova, M.; Akhtar, A.: Protocol to isolate stress granules in HeLa cells using fluorescence-activated non-membrane condensate isolation. STAR Protocols 6, 103987 (2025)
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Petry, P.; Oschwald, A.; Merkt, S.; Dinh, T.-L. J.; Andrieux, G.; Crisand, C.; Botterer, H.; Nent, E.; Paterson, N.; Havermans, M. et al.; Sankowski, R.; Schilling, O.; Boerries, M.; Amann, L.; Groß, O.; Schlitzer, A.; Prinz, M.; Lämmermann, T.; Kierdorf, K.: Early microglia progenitors colonize the embryonic CNS via integrin-mediated migration from the pial surface. Developmental Cell (2025)
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Djeghloul, D.; Cheriyamkunnel, S.; Patel, B.; Kramer, H.; Montoya, A.; Brown, K. E.; Whilding, C.; Nesterova, T. B.; Wei, G.; Brockdorff, N. et al.; Grządzielewska, I.; Karayol, R.; Akhtar, A.; Merkenschlager, M.; Fisher, A. G.: Hbo1 and Msl complexes preserve differential compaction and H3K27me3 marking of active and inactive X chromosomes during mitosis. Nature Cell Biology 27, pp. 1482 - 1495 (2025)
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Fuhrmann, T.; Shukeir, N.; Ching, R. W.; Erikson, G.; Dou, Y.; Sawitzki, Z.; Onishi-Seebacher, M.; Galan, C.; Jenuwein, T.: The isoflavone genistein selectively stimulates major satellite repeat transcription in mouse heterochromatin. Epigenetics & Chromatin 18, 58 (2025)
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Frosch, M.; Shimizu, T.; Wogram, E.; Amann, L.; Gruber, L.; Groisman, A. I.; Fliegauf, M.; Schwabenland, M.; Chhatbar, C.; Zechel, S. et al.; Rosewich, H.; Gärtner, J.; Quintana, F. J.; Büscher, J. M.; Blank, T.; Binder, H.; Stadelmann, C.; Letzkus, J. J.; Hopf, C.; Masuda, T.; Knobeloch, K.-P.; Prinz, M.: Microglia-neuron crosstalk through Hex-GM2-MGL2 maintains brain homeostasis. Nature (2025)
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Knipper, J. A.; Campbell, S. M.; Allen, J. E.; Taylor, M. D.: PD-L2 Inhibits Protective Immunity, Th2 Cell Functional Quality, and GATA-3 Expression During Filarial Nematode Infection. European Journal of Immunology 55 (2025)
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Das, S.; Fontenla-Iglesias, F.; Hirano, M.; Morimoto, R.; Au-Yeung, B. B.; Wang, Y.; Li, W.; Boehm, T.; Rast, J. P.; Cooper, M. D.: Variable lymphocyte receptor F is generated via somatic diversification and expressed by lamprey T-like cells. Nature Communications 16, 6503 (2025)
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Lalioti, M.-E.; Romero-Mulero, M. C.; Karabacz, N.; Mess, J.; Demollin, H.; Rettkowski, J.; Schuldes, K.; Mitterer, M.; Wadle, C.; Shoumariyeh, K. et al.; Egg, M.; Alfonso-Gonzalez, C.; Jäcklein, K.; Schönberger, K.; Karantzelis, N.; Reisig, G.; Aktories, P.; Mayer, I. M.; Tsoukala, I.; Schäffer, A.; Tirado-Gonzalez, I.; Dugourd, A.; Braun, L. M.; Silva-Rego, B.; Jones, M.-J.; Kierdorf, K.; Saez-Rodriguez, J.; Reising, K.; Walter, S. G.; Medyouf, H.; Hilgers, V.; Ghiaur, G.; Zeiser, R.; Karpova, D.; Renders, S.; Gravius, S.; Büscher, J. M.; Cabezas-Wallscheid, N.: Differentiation, ageing and leukaemia alter the metabolic profile of human bone marrow haematopoietic stem and progenitor cells. Nature Cell Biology (2025)
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Ardura-Fabregat, A.; Bosch, L. F. P.; Wogram, E.; Mossad, O.; Sankowski, R.; Aktories, P.; Kieger, L.; Cook, J.; Hasavci, D.; Ulupinar, H. et al.; Brock, D.; Wang, F.; Iovino, N.; Wald, S.; Preissl, S.; Yilmaz, B.; Schnepf, D.; Macpherson, A. J.; Blank, T.; Kierdorf, K.; Prinz, M.: Response of spatially defined microglia states with distinct chromatin accessibility in a mouse model of Alzheimer's disease. Nature Neuroscience 28, pp. 1688 - 1703 (2025)
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Ching, R. W.; Świst-Rosowska, K. M.; Erikson, G.; Koschorz, B.; Engist, B.; Jenuwein, T.: Forced expression of MSR repeat transcripts above a threshold limit breaks heterochromatin organisation. Nature Communications 16, 6420 (2025)
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Glaser, J.; Cova, G.; Fauler, B.; Prada-Medina, C. A.; Stanislas, V.; Phan, M. H. Q.; Schöpflin, R.; Aktas, Y.; Franke, M.; Andrey, G. et al.; Bartzoka, N.; Paliou, C.; Laupert, V.; Chan, W.-L.; Wittler, L.; Mielke, T.; Mundlos, S.: Enhancer adoption by an LTR retrotransposon generates viral-like particles, causing developmental limb phenotypes. Nature Genetics (2025)
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Chatterjee, S.; Rückert, T.; Martin, I.; Michaeli, E.; Büscher, J. M.; Apostolova, P.; Erny, D.; Lalioti, M.-E.; Biavasco, F.; Hartmann, A. et al.; Runge, S.; Braun, L. M.; Talvard-Balland, N.; Adams, R. C.; Schmitt-Graeff, A.; Cook, J.; Wenger, V.; Athanassopoulos, D.; Hasavci, D.; Vallejo-Janeta, A. P.; Blank, T.; Schaible, P.; Vinnakota, J. M.; Zähringer, A.; Ganal-Vonarburg, S. C.; Melchinger, W.; Pfeifer, D.; Köhler, N.; Rosshart, S. P.; Michonneau, D.; Socié, G.; Andrieux, G.; Cabezas-Wallscheid, N.; Boerries, M.; Prinz, M.; Zeiser, R.: Gut microbiota-derived TMAVA is a modulator of acute CNS-GVHD. Journal of experimental medicine: JEM 222, e20242180 (2025)
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Argaw-Denboba, A.: The gut microbiome–germline axis: Does a prospective father’s gut microbiota matter? Science 389, pp. 38-A - 38-B (2025)
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Nusser, A.; Thomas, O. S.; Zhang, G.; Nagakubo, D.; Arrigoni, L.; Krauth, B.; Boehm, T.: Developmental trajectory and evolutionary origin of thymic mimetic cells. Nature 643, pp. 1066 - 1075 (2025)
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Alfonso-Gonzalez, C.; Shi, M.; Gorey, S.; Holec, S.; Carrasco, J.; Rauer, M.; Tsagkris, S.; Mateos, F.; Hilgers, V.: ELAV mediates circular RNA biogenesis in neurons. Genes & Development 39, pp. 1064 - 1080 (2025)
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Şerifoğlu, N.; Allavena, G.; Lopes-Bastos, B.; Marzullo, M.; Marques, A.; Colibert, P.; Bousounis, P.; Trompouki, E.; Ferreira, M. G.: cGAS-STING are responsible for premature aging of telomerase-deficient zebrafish. The EMBO Journal 44, pp. 4666 - 4680 (2025)
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Matsushita, M.; Muri, J.; Berest, I.; Li, F.; Liu, H.; Corak, B.; Zamboni, N.; Büscher, J. M.; Othman, A.; Corrado, M. et al.; Cupovic, J.; Werner, S.; Kovacs, W.; Kopf, M.: Peroxisomes are critical for a unique metabolic demand and survival of alveolar macrophages. Cell Reports 44, 115623 (2025)
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Haring, E.; Büscher, J. M.; Apostolova, P.: Metabolism in hematology: Technological advances open new perspectives on disease biology and treatment. HemaSphere: open access journal of the European Hematology Association 9, e70134 (2025)
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Rettkowski, J.; Romero-Mulero, M. C.; Singh, I.; Wadle, C.; Wrobel, J.; Chiang, D.; Hoppe, N.; Mess, J.; Schönberger, K.; Lalioti, M.-E. et al.; Jäcklein, K.; SilvaRego, B.; Bühler, T.; Karabacz, N.; Egg, M.; Demollin, H.; Obier, N.; Zhang, Y. W.; Jülicher, C.; Hetkamp, A.; Czerny, M.; Jones, M.-J.; Seung, H.; Jain, R.; von Mühlen, C. Z.; Maier, A.; Lother, A.; Hilgendorf, I.; van Galen, P.; Kreso, A.; Westermann, D.; Rodriguez-Fraticelli, A. E.; Heidt, T.; Cabezas-Wallscheid, N.: Modulation of bone marrow haematopoietic stem cell activity as a therapeutic strategy after myocardial infarction: a preclinical study. Nature Cell Biology 27, pp. 591 - 604 (2025)
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Cardamone, F.; Piva, A.; Löser, E.; Eichenberger, B.; Romero-Mulero, M. C.; Zenk, F.; Shields, E. J.; Cabezas-Wallscheid, N.; Bonasio, R.; Tiana, G. et al.; Zhan, Y.; Iovino, N.: Chromatin landscape at cis-regulatory elements orchestrates cell fate decisions in early embryogenesis. Nature Communications 16, 3007 (2025)
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Komorowska, J. A.; Grammer, C.; Bălan, M.; Swann, J.: Ndrg3 is a critical regulator of peripheral T cell maturation and homeostasis. Science Advances 11 (2025)
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Subramanian, S.; Phongbunchoo, Y.; Cauchy, P.; Ramamoorthy, S.: Comparative Profiling of Regulatory Modules as a Tool for Identifying the Transcription Factor Network Linked to Leukemogenesis. Springer Protocols 2909, pp. 179 - 209 (2025)
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Grzejda, D.; Hess, A.; Rezansoff, A.; Gorey, S.; Carrasco, J.; Alfonso-Gonzalez, C.; Tsagkris, S.; Neuhaus, L.; Shi, M.; Ozbulut, H. C. et al.; Vögtle, F.-N.; Vlachos, A.; Hilgers, V.: Pumilio differentially binds to mRNA 3′ UTR isoforms to regulate localization of synaptic proteins. EMBO Reports (2025)
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Patrick, E. M.; Yadav, R.; Senanayake, K.; Cotter, K.; Putnam, A. A.; Jankowsky, E.; Comstock, M. J.: High-resolution fleezers reveal duplex opening and stepwise assembly by an oligomer of the DEAD-box helicase Ded1p. Nature Communications 16, 1015 (2025)
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Panzeri, I.; Fagnocchi, L.; Apostle, S.; Tompkins, M.; Wolfrum, E.; Madaj, Z.; Hostetter, G.; Liu, Y.; Schaefer, K.; Yang, C.-H. et al.; Bergsma, A.; Drougard, A.; Dror, E.; PERMUTE; Chandler, D. P.; Schramek, D.; Triche Jr, T. J.; Pospisilik, J. A.: TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic states. Nature cancer 6, pp. 385 - 403 (2025)
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Saller, B. S.; Wöhrle, S.; Fischer, L.; Dufossez, C.; Ingerl, I. L.; Kessler, S.; Mateo-Tortola, M.; Gorka, O.; Lange, F.; Cheng, Y. et al.; Neuwirt, E.; Marada, A.; Koentges, C.; Urban, C.; Aktories, P.; Reuther, P.; Giese, S.; Kirschnek, S.; Mayer, C.; Pilic, J.; Falquez-Medina, H.; Oelgeklaus, A.; Deepagan, V. G.; Shojaee, F.; Zimmermann, J. A.; Weber, D.; Tai, Y.-H.; Crois, A.; Ciminski, K.; Peyronnet, R.; Brandenburg, K. S.; Wu, G.; Baumeister, R.; Heimbucher, T.; Rizzi, M.; Riedel, D.; Helmstädter, M.; Büscher, J. M.; Neumann, K.; Misgeld, T.; Kerschensteiner, M.; Walentek, P.; Kreutz, C.; Maurer, U.; Rambold, A.; Vince, J. E.; Edlich, F.; Malli, R.; Häcker, G.; Kierdorf, K.; Meisinger, C.; Köttgen, A.; Jakobs, S.; Weber, A. N. R.; Schwemmle, M.; Groß, C. J.; Groß, O.: Acute suppression of mitochondrial ATP production prevents apoptosis and provides an essential signal for NLRP3 inflammasome activation. Immunity 58, pp. 90 - 107 (2025)
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2024
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Amann, L.; Fell, A.; Monaco, G.; Sankowski, R.; Wu, H. Z. Q.; Jordão, M. J. C.; Borst, K.; Fliegauf, M.; Masuda, T.; Ardura-Fabregat, A. et al.; Paterson, N.; Nent, E.; Cook, J.; Staszewski, O.; Mossad, O.; Falk, T.; Louveau, A.; Smirnov, I.; Kipnis, J.; Lämmermann, T.; Prinz, M.: Extrasinusoidal macrophages are a distinct subset of immunologically active dural macrophages. Science Immunology 9, eadh1129 (2024)
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Lee, C.; Quintana, A.; Suppanz, I.; Gomez-Auli, A.; Mittler, G.; Cissé, I. I.: Light-induced targeting enables proteomics on endogenous condensates. Cell 187, pp. 7079 - 7090 (2024)
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