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 (1), Article 4971 (2023)

Su, Y.-A.; Chiu, H.-Y.; Chang, Y.-C.; Sung, C.-J.; Chen, C.-W.; Tei, R.; Huang, X.-R.; Hsu, S.-C.; Lin, S.-S.; Wang, H.-C. et al.; Lin, Y.-C.; Hsu, J.-C.; Bauer, H.; Feng, Y.; Baskin, J. M.; Chang, Z.-F.; Liu, Y.-W.: NME3 binds to phosphatidic acid and mediates PLD6-induced mitochondrial tethering. Journal of Cell Biology 222 (10), Article e202301091 (2023)

Stefanova, M. E.; Ing-Simmons, E.; Stefanov, S.; Flyamer, I.; Garcia, H. D.; Schöpflin, R.; Henssen, A. G.; Vaquerizas, J. M.; Mundlos, S.: Doxorubicin Changes the Spatial Organization of the Genome around Active Promoters. Cells 12 (15), 2001 (2023)

Fradique , R.; Causa, E.; Delahousse, C.; Kotar, J.; Pinte, L.; Vallier, L.; Vila-Gonzalez, M.; Cicuta , P.: Assessing motile cilia coverage and beat frequency in mammalian in vitro cell culture tissues. Royal Society Open Science 10 (8), Article 230185 (2023)

Gralinska, E.; Vingron, M.: Association Plots: visualizing cluster-specific associations in high-dimensional correspondence analysis biplots. Journal of the Royal Statistical Society - Series C: Applied Statistics 72 (4), pp. 1023 - 1040 (2023)

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)

Kaur Aulakh, S.; Sellés Vidal, L.; South , E. J.; Peng, H.; Varma, S. J.; Herrera-Dominguez , L.; Ralser, M.; Ledesma-Amaro, R.: Spontaneously established syntrophic yeast communities improve bioproduction. Nature Chemical Biology 19 (8), pp. 951 - 961 (2023)

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)

Garcia-Ojalvo, J.; Bulut-Karslioglu, A.: On time: developmental timing within and across species. Development 150 (14), dev201045 (2023)

Maji, R. K.; Czepukojc, B.; Scherer, M.; Tierling, S.; Cadenas, C.; Gianmoena, K.; Gasparoni, N.; Nordström, K.; Gasparoni, G.; Laggai, S. et al.; Yang, X.; Sinha, A.; Ebert, P.; Falk-Paulsen, M.; Kinkley, S.; Hoppstädter, J.; Chung, H.-R.; Rosenstiel, P.; Hengstler, J. G.; Walter, J.; Schulz, M. H.; Kessler, S. M.; Kiemer, A. K.: Alterations in the Hepatocyte Epigenetic Landscape in Steatosis. Epigenetics & Chromatin 16, Article 30 (2023)

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)

Allou, L.; Mundlos, S.: Disruption of regulatory domains and novel transcripts as disease-causing mechanisms. BioEssays 45, 2300010 (2023)

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)

Gorriz, R. F.; Volkenandt, S.; Imhof, P.: Protonation-State Dependence of Hydration and Interactions in the Two Proton-Conducting Channels of Cytochrome c Oxidase. International Journal of Molecular Sciences 24 (13), 10464 (2023)

Khaveh, N.; Schachler, K.; Berghöfer, J.; Jung, K.; Metzger, J.: Altered hair root gene expression profiles highlight calcium signaling and lipid metabolism pathways to be associated with curly hair initiation and maintenance in Mangalitza pigs. Frontiers in Genetics 14, 1184015 (2023)

Noviello, G.; Gjaltema, R. A. F.; Schulz, E. G.: CasTuner is a degron and CRISPR/Cas-based toolkit for analog tuning of endogenous gene expression. Nature Communications 14 (1), 3225 (2023)

Lienhard, M.; van den Beucken , T.; Timmermann, B.; Hochradel, M.; Boerno, S.; Caiment , F.; Vingron, M.; Herwig, R.: IsoTools: a flexible workflow for long-read transcriptome sequencing analysis. Bioinformatics 39 (6), btad364 (2023)

Mehringer, S.; Seiler, E.; Droop, F.; Darvish, M.; Rahn, R.; Vingron, M.; Reinert, K.: Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries. Genome Biology: Biology for the Post-Genomic Era 24 (1), 131 (2023)

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)

Preußner, M.; Smith, H. L.; Hughes, D.; Zhang, M.; Emmerichs, A.-K.; Scalzitti, S.; Peretti, D.; Swinden , D.; Neumann, A.; Haltenhof, T. et al.; Mallucci, G. R.; Heyd, F.: ASO targeting RBM3 temperature‐controlled poison exon splicing prevents neurodegeneration in vivo. Embo Molecular Medicine 15 (5), e17157 (2023)