Publications

Journal Article (120)

1.
Journal Article
Kouroukli, A. G.; Rajaram, N.; Bashtrykov, P.; Kretzmer, H.; Siebert, R.; Jeltsch, A.; Bens, S.: Targeting oncogenic TERT promoter variants by allele-specific epigenome editing. Clinical Epigenetics 15 (1), 183 (2024)
2.
Journal Article
Ilik, I. A.; Glažar, P.; Tse, K.; Brändl, B.; Meierhofer, D.; Müller, F.-J.; Smith, Z. D.; Aktas, T.: Autonomous transposons tune their sequences to ensure somatic suppression. Nature (2024)
3.
Journal Article
van der Weijden, V. A.; Stötzel, M.; Iyer, D. P.; Fauler, B.; Gralinska, E.; Shahraz, M.; Meierhofer, D.; Vingron, M.; Rulands, S.; Alexandrov, T. et al.; Mielke, T.; Bulut-Karslioglu, A.: FOXO1-mediated lipid metabolism maintains mammalian embryos in dormancy. Nature Cell Biology (2024)
4.
Journal Article
Bulut-Karslioglu, A.: The double-edged sword of bivalency. Nature Reviews Molecular Cell Biology 25 (1), 6 (2024)
5.
Journal Article
Zhou, W.; Fischer, A.; Ogwang, M. D.; Luo, W.; Kerchan, P.; Reynolds, S. J.; Tenge, C. N.; Were, P. A.; Kuremu, R. T.; Wekesa, W. N. et al.; Masalu, N.; Kawira, E.; Kinyera, T.; Otim, I.; Legason, I. D.; Nabalende, H.; Ayers, L. W.; Bhatia, K.; Goedert, J. J.; Gouveia, M. H.; Cole, N.; Hicks, B.; Jones, K.; Hummel, M.; Schlesner, M.; Chagaluka, G.; Mutalima, N.; Borgstein, E.; Liomba, G. N.; Kamiza, S.; Mkandawire, N.; Mitambo, C.; Molyneux, E. M.; Newton, R.; Glaser, S.; Kretzmer, H.; Manning, M.; Hutchinson, A.; Hsing, A. W.; Tettey, Y.; Adjei, A. A.; Chanock, S. J.; Siebert, R.; Yeager, M.; Prokunina-Olsson, L.; Machiela, M. J.; Mbulaiteye, S. M.: Mosaic chromosomal alterations in peripheral blood leukocytes of children in sub-Saharan Africa. Nature Communications 14 (1), 8081 (2023)
6.
Journal Article
Basu, S.; Martínez-Cristóbal, P.; Frigolé-Vivas, M.; Pesarrodona, M.; Lewis, M.; Szulc, E.; Bañuelos, C. A.; Sánchez-Zarzalejo, C.; Bielskutė, S.; Zhu, J. et al.; Pombo-García, K.; Garcia-Cabau, C.; Zodi, L.; Dockx, H.; Smak, J.; Kaur, H.; Batlle, C.; Mateos, B.; Biesaga, M.; Escobedo, A.; Bardia, L.; Verdaguer, X.; Ruffoni, A.; Mawji, N. R.; Wang, J.; Obst, J. K.; Tam, T.; Brun-Heath, I.; Ventura, S.; Meierhofer, D.; García, J.; Robustelli, P.; Stracker, T. H.; Sadar, M. D.; Riera, A.; Hnisz, D.; Salvatella, X.: Rational optimization of a transcription factor activation domain inhibitor. Nature Structural & Molecular Biology 30 (12), pp. 1958 - 1969 (2023)
7.
Journal Article
Klever, M.-K.; Sträng , E.; Hetzel, S.; Jungnitsch, J.; Dolnik, A.; Schöpflin, R.; Schrezenmeier, J.-F.; Schick, F.; Blau, O.; Westermann, J. et al.; Rücker , F. G. ..; Xia, Z.; Döhner, K.; Schrezenmeier, H.; Spielmann, M.; Meissner, A.; Melo, U. S.; Mundlos, S.; Bullinger, L.: AML with complex karyotype: extreme genomic complexity revealed by combined long-read sequencing and Hi-C technology. Blood Advances 7 (21), pp. 6520 - 6531 (2023)
8.
Journal Article
Rapakoulia, T.; Lopez Ruiz de Vargas, S.; Akbari-Omgba, P.; Laupert, V.; Ulitsky, I.; Vingron, M.: CENTRE: a gradient boosting algorithm for Cell-type-specific ENhancer-Target pREdiction. Bioinformatics 39 (11), btad687 (2023)
9.
Journal Article
Ravid Lustig, L.; Sampath Kumar, A.; Schwämmle, T.; Dunkel, I.; Noviello, G.; Limberg, E.; Weigert, R.; Pacini, G.; Buschow, R.; Ghauri, A. et al.; Stötzel, M.; Wittler, L.; Meissner, A.; Schulz, E. G.: GATA transcription factors drive initial Xist upregulation after fertilization through direct activation of long-range enhancers. Nature Cell Biology 25, pp. 1704 - 1715 (2023)
10.
Journal Article
Häfner, S. J.; Jansson, M. D.; Altinel, K.; Andersen, K. L.; Abay-Nørgaard, Z.; Ménard, P.; Fontenas, M.; Sørensen, D. M.; Gay, D. M.; Arendrup, F. S. et al.; Tehler, D.; Krogh, N.; Nielsen, H.; Kraushar, M. L.; Kirkeby, A.; Lund, A. H.: Ribosomal RNA 2′-O-methylation dynamics impact cell fate decisions. Developmental Cell 58 (17), pp. 1593 - 1609 (2023)
11.
Journal Article
Duss, O.; Nikolay, R.; Kraushar, M. L.: Decoding a ribosome uncertainty. Trends in Genetics 39 (9), pp. 639 - 641 (2023)
12.
Journal Article
Bressin, A.; Jasnovidova, O.; Arnold, M.; Altendorfer, E.; Trajkovski , F.; Kratz, T. A.; Handzlik, J. E.; Hnisz, D.; Mayer, A.: High-sensitive nascent transcript sequencing reveals BRD4-specific control of widespread enhancer and target gene transcription. Nature Communications 14, 4971 (2023)
13.
Journal Article
Hoetker, M. S.; Yagi, M.; Di Stefano, B.; Langerman, J.; Cristea, S.; Ping Wong, L.; Huebner, A. J.; Charlton, J.; Deng, W.; Haggerty, C. et al.; Sadreyev, R. I.; Meissner, A.; Michor, F.; Plath, K.; Hochedlinger, K.: H3K36 methylation maintains cell identity by regulating opposing lineage programmes. Nature Cell Biology 25, pp. 1121 - 1134 (2023)
14.
Journal Article
Christou-Kent, M.; Cuartero, S.; Garcia-Cabau, C.; Ruehle, J.; Naderi, J.; Erber, J.; Neguembor, M. V.; Plana-Carmona, M.; Alcoverro-Bertran, M.; De Andres-Aguayo, L. et al.; Klonizakis, A.; Julià-Vilella, E.; Lynch, C.; Serrano, M.; Hnisz, D.; Salvatella, X.; Graf, T.; Stik, G.: CEBPA phase separation links transcriptional activity and 3D chromatin hubs. Cell Reports 42 (8), 112897 (2023)
15.
Journal Article
Garcia-Ojalvo, J.; Bulut-Karslioglu, A.: On time: developmental timing within and across species. Development 150 (14), dev201045 (2023)
16.
Journal Article
Sampath Kumar, A.; Tian, L.; Bolondi, A.; Aragonés Hernández, A.; Stickels, R.; Kretzmer, H.; Murray, E.; Wittler, L.; Walther, M.; Barakat, G. et al.; Haut, L.; Elkabetz, Y.; Macosko, E. Z.; Guignard, L.; Chen, F.; Meissner, A.: Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis. Nature Genetics 55 (7), pp. 1176 - 1185 (2023)
17.
Journal Article
Guo, H.; Vuille, J. A.; Wittner, B. S.; Lachtara, E. M.; Hou, Y.; Lin, M.; Zhao, T.; Raman, A. T.; Russell, H. C.; Reeves, B. A. et al.; Pleskow, H. M.; Wu, C.-L.; Gnirke, A.; Meissner, A.; Efstathiou, J. A.; Lee, R. J.; Toner, M.; Aryee, M. J.; Lawrence, M. S.; Miyamoto, D. T.; Maheswaran, S.; Haber, D. A.: DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs. Cell 186 (13), pp. 2765 - 2782 (2023)
18.
Journal Article
Dejosez, M.; Dall’Agnese, A.; Ramamoorthy, M.; Platt, J.; Yin, X.; Hogan, M.; Brosh, R.; Weintraub, A. S.; Hnisz, D.; Abraham, B. J. et al.; Young, R. A.; Zwaka, T. P.: Regulatory architecture of housekeeping genes is driven by promoter assemblies. Cell Reports 42 (5), 112505 (2023)
19.
Journal Article
Weigert, R.; Hetzel, S.; Bailly, N.; Haggerty, C.; Ilik, I. A.; Kwong Yung, P. Y.; Navarro, C.; Bolondi, A.; Sampath Kumar, A.; Anania, C. et al.; Brändl, B.; Meierhofer, D.; Lupiáñez, D. G.; Müller, F.-J.; Aktas, T.; Elsässer, S. J.; Kretzmer, H.; Smith, Z. D.; Meissner, A.: Dynamic antagonism between key repressive pathways maintains the placental epigenome. Nature Cell Biology 25, pp. 579 - 591 (2023)
20.
Journal Article
Qin, B.; Lauer, S. M.; Balke, A.; Vieira-Vieira, C. H.; Bürger, J.; Mielke, T.; Selbach, M.; Scheerer, P.; Spahn, C. M. T.; Nikolay, R.: Cryo-EM captures early ribosome assembly in action. Nature Communications 14, 898 (2023)
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