Publications

2023

Journal Article

Alfonso-Gonzalez, C.; Arrigoni, L.; Ozbulut, H. C.; Falk, S.; Bönisch, U.; Hilgers, V.: Identification of regulatory links between transcription and RNA processing with long-read sequencing. STAR Protocols 4, 102505 (2023)

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Van Emmenis, L.: Nina Cabezas Wallscheid: Enjoying the freedom to decide my research path. Journal of experimental medicine: JEM 220, e20231561 (2023)

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Pérez-Mojica, J. E.; Enders, L.; Lau, K. H.; Lempradl, A.: Single-embryo RNA sequencing for continuous and sex-specific gene expression analysis on Drosophila. STAR Protocols 4, 102535 (2023)

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Schmied, C.; Nelson, M. S.; Avilov, S.; Bakker, G.-J.; Bertocchi, C.; Bischof, J.; Boehm, U.; Brocher, J.; Carvalho, M. T.; Chiritescu, C. et al.; Christopher, J.; Cimini, B. A.; Conde-Sousa, E.; Ebner, M.; Ecker, R.; Eliceiri, K.; Fernandez-Rodriguez, J.; Gaudreault, N.; Gelman, L.; Grunwald, D.; Gu, T.; Halidi, N.; Hammer, M.; Hartley, M.; Held, M.; Jug, F.; Kapoor, V.; Koksoy, A. A.; Lacoste, J.; Le Dévédec, S.; Le Guyader, S.; Liu, P.; Martins, G. G.; Mathur, A.; Miura, K.; Llopis, P. M.; Nitschke, R.; North, A.; Parslow, A. C.; Payne-Dwyer, A.; Plantard, L.; Ali, R.; Schroth-Diez, B.; Schütz, L.; Scott, R. T.; Seitz, A.; Selchow, O.; Sharma, V. P.; Spitaler, M.; Srinivasan, S.; Strambio-De-Castillia, C.; Taatjes, D.; Tischer, C.; Jambor, H. K.: Community-developed checklists for publishing images and image analyses. Nature Methods (2023)

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Vaikunthanathan, T.; Landmann, E.; Correa, D. M.; Romano, M.; Trevelin, S. C.; Peng, Q.; Crespo, E.; Corrado, M.; Lozano, J.-J.; Pearce, E. L. et al.; Perpinan, E.; Zoccarato, A.; Siew, L.; Edwards-Hicks, J.; Khan, R.; Luu, N.-T.; Thursz, M. R.; Newsome, P. N.; Martinez-Llordella, M.; Shah, N.; Lechler, R. I.; Shah, A. M.; Sanchez-Fueyo, A.; Lombardi, G.; Safinia, N.: Dysregulated anti-oxidant signalling and compromised mitochondrial integrity negatively influence regulatory T cell function and viability in liver disease. EBioMedicine 95, 104778 (2023)

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Grigorash, B. B.; van Essen, D.; Liang, G.; Grosse, L.; Emelyanov, A.; Kang, Z.; Korablev, A.; Kanzler, B.; Molina, C.; Lopez, E. et al.; Demidov, O. N.; Garrido, C.; Liu, F.; Saccani, S.; Bulavin, D. V.: p16^High senescence restricts cellular plasticity during somatic cell reprogramming. Nature Cell Biology 25, pp. 1265 - 1278 (2023)

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Das, S.; Boehm, T.; Holland, S. J.; Rast, J. P.; Fontenla-Iglesias, F.; Morimoto, R.; Valadez, J. G.; Heimroth, R. D.; Hirano, M.; Cooper, M. D.: Evolution of two distinct variable lymphocyte receptors in lampreys: VLRD and VLRE. Cell Reports 42, 112933 (2023)

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Zhang, Y. W.; Velasco-Hernandez, T.; Mess, J.; Lalioti, M.-E.; Romero-Mulero, M. C.; Obier, N.; Karantzelis, N.; Rettkowski, J.; Schönberger, K.; Karabacz, N. et al.; Jäcklein, K.; Morishima, T.; Trincado, J. L.; Romecin, P.; Martinez-Moreno, A.; Takizawa, H.; Shoumariyeh, K.; Renders, S.; Zeiser, R.; Pahl, H. L.; Béliveau, F.; Hébert, J.; Lehnertz, B.; Sauvageau, G.; Menendez, P.; Cabezas-Wallscheid, N.: GPRC5C Drives Branched-Chain Amino Acid Metabolism in Leukemogenesis. Blood Advances Blood advances / American Society of Hematology, bloodadvances.2023010460. (2023)

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Castoldi, A.; Sanin, D. E.; van Bakker, N. T.; Aguiar, C. F.; de Monteiro, L. B.; Rana, N.; Grzes, K. M.; Kabat, A. M.; Curtis, J.; Cameron, A. M. et al.; Caputa, G.; de Souza, T. A.; Souto, F. O.; Büscher, J. M.; Edwards-Hicks, J.; Pearce, E. L.; Pearce, E. J.; Camara, N. O. S.: Metabolic and functional remodeling of colonic macrophages in response to high-fat diet-induced obesity. iScience 26, 107719 (2023)

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Tsang, T. H.; Wiese, M.; Helmstädter, M.; Stehle, T.; Seyfferth, J.; Shvedunova, M.; Holz, H.; Walz, G.; Akhtar, A.: Transcriptional regulation by the NSL complex enables diversification of IFT functions in ciliated versus nonciliated cells. Science Advances 9, eadh5598 (2023)

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Zhang, G.; Swann, J.; Felder, M.; O'Meara, C.; Boehm, T.: Lymphocyte pathway analysis using naturally lymphocyte-deficient fish. European Journal of Immunology, e2350577 (2023)

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Seifert, G.; Fagnocchi, L.; Edozie, M.; Herrmann, S.; Baumann, H.; Panzeri, I.; Mewes, S.; Aicher, D.; Runkel, M.; Lässle, C. et al.; Fink, J.; Marjanovic, G.; Fichtner-Feigl, S.; Pospisilik, J. A.: The DECON pilot project investigates predictive markers for successful bariatric surgery. Scientific Reports 13, 13401 (2023)

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Lan, C.; Kim, J.; Ulferts, S.; Aprile-Garcia, F.; Weyrauch, S.; Anandamurugan, A.; Grosse, R.; Sawarkar, R.; Reinhardt, A.; Hugel, T.: Quantitative real-time in-cell imaging reveals heterogeneous clusters of proteins prior to condensation. Nature Communications 14, 4831 (2023)

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Forde, A. J.; Kolter, J.; Zwicky, P.; Baasch, S.; Lohrmann, F.; Eckert, M.; Gres, V.; Lagies, S.; Gorka, O.; Rambold, A. et al.; Büscher, J. M.; Kammerer, B.; Lachmann, N.; Prinz, M.; Groß, O.; Pearce, E. J.; Becher, B.; Henneke, P.: Metabolic rewiring tunes dermal macrophages in staphylococcal skin infection. Science Immunology 8, eadg3517 (2023)

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Winkler, F.; Hipp, A. V.; Ramirez, C.; Martin, B.; Villa, M.; Neuwirt, E.; Gorka, O.; Aerssens, J.; Johansson, S. E.; Rana, N. et al.; Llewellyn-Lacey, S.; Price, D. A.; Panning, M.; Groß, O.; Pearce, E. L.; Hermann, C. M.; Schumann, K.; Hannibal, L.; Neumann-Haefelin, C.; Boettler, T.; Knolle, P.; Hofmann, M.; Wohlleber, D.; Thimme, R.; Bengsch, B.: Enolase represents a metabolic checkpoint controlling the differential exhaustion programmes of hepatitis virus-specific CD8⁺ T cells. Gut 72, pp. 1971 - 1984 (2023)

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Swann, J.; Grammer, C.; Schorpp, M.; Boehm, T.: A survey of the adaptive immune genes of the polka-dot batfish Ogcocephalus cubifrons. BMC Immunology 24, 20 (2023)

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Kim, M.; Serwa, R. A.; Samluk, L.; Suppanz, I.; Kodroń, A.; Stępkowski, T. M.; Elancheliyan, P.; Tsegaye, B.; Oeljeklaus, S.; Wasilewski, M. et al.; Warscheid, B.; Chacinska, A.: Immunoproteasome-specific subunit PSMB9 induction is required to regulate cellular proteostasis upon mitochondrial dysfunction. Nature Communications 14, 4092 (2023)

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Iyer, S. S.; Sun, Y.; Seyfferth, J.; Manjunath, V.; Samata, M.; Alexiadis, A.; Kulkarni, T.; Gutierrez, N.; Georgiev, P.; Shvedunova, M. et al.; Akhtar, A.: The NSL complex is required for piRNA production from telomeric clusters. Life science alliance 6, e202302194 (2023)

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Appiah, B.; Fullio, C. L.; Ossola, C.; Bertani, I.; Restelli, E.; Cheffer, A.; Polenghi, M.; Haffner, C.; Garcia-Miralles, M.; Zeis, P. et al.; Treppner, M.; Bovio, P.; Schlichtholz, L.; Mas-Sanchez, A.; Zografidou, L.; Winter, J.; Binder, H.; Grün, D.; Kalebic, N.; Taverna, E.; Vogel, T.: DOT1L activity affects neural stem cell division mode and reduces differentiation and ASNS expression. EMBO Reports, e56233 (2023)

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Rosales-Alvarez, R. E.; Rettkowski, J.; Herman, J. S.; Dumbović, G.; Cabezas-Wallscheid, N.; Grün, D.: VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells. Genome Biology: Biology for the Post-Genomic Era 24, 148 (2023)

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Giorgetti, O. B.; O'Meara, C. P.; Schorpp, M.; Boehm, T.: Origin and evolutionary malleability of T cell receptor α diversity. Nature (2023)

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Iwanami, N.; Richter, A. S.; Sikora, K.; Boehm, T.: Tnpo3 controls splicing of the pre-mRNA encoding the canonical TCR α chain of iNKT cells. Nature Communications 14, 3645 (2023)

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Fotouhi, O.; Nizamuddin, S.; Falk, S.; Schilling, O.; Knüchel-Clarke, R.; Biniossek, M. L.; Timmers, H. T. M.: Alternative mRNA Splicing Controls the Functions of the Histone H3K27 Demethylase UTX/KDM6A. Cancers / Molecular Diversity Preservation International (MDPI) 15, 3117 (2023)

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Cardamone, F.; Zhan, Y.; Iovino, N.; Zenk, F.: Chromosome Conformation Capture Followed by Genome-Wide Sequencing (Hi-C) in Drosophila Embryos. Methods in Molecular Biology 2655, pp. 41 - 55 (2023)

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Pircher, H.; Pinschewer, D. D.; Boehm, T.: MHC I tetramer staining tends to overestimate the number of functionally relevant self-reactive CD8 T cells in the pre-immune repertoire. European Journal of Immunology, e2350402 (2023)

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Alfonso-Gonzalez, C.; Legnini, I.; Holec, S.; Arrigoni, L.; Ozbulut, H. C.; Mateos, F.; Koppstein, D.; Rybak-Wolf, A.; Bönisch, U.; Rajewsky, N. et al.; Hilgers, V.: Sites of transcription initiation drive mRNA isoform selection. Cell 186 (2023)

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Dror, E.; Fagnocchi, L.; Wegert, V.; Apostle, S.; Grimaldi, B.; Gruber, T.; Panzeri, I.; Heyne, S.; Höffler, K. D.; Kreiner, V. et al.; Ching, R.; Lu, T. T.-H.; Semwal, A.; Johnson, B.; Senapati, P.; Lempradl, A.; Schones, D.; Imhof, A.; Shen, H.; Pospisilik, J. A.: Epigenetic dosage identifies two major and functionally distinct β cell subtypes. Cell Metabolism 35, pp. 821 - 836 (2023)

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Akhtar, A.: Asifa Akhtar. Current Biology 33, pp. R286 - R287 (2023)

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Ciabrelli, F.; Rabbani, L.; Cardamone, F.; Zenk, F.; Löser, E.; Schächtle, M. A.; Mazina, M.; Loubiere, V.; Iovino, N.: CBP and Gcn5 drive zygotic genome activation independently of their catalytic activity. Science Advances 9, eadf2687 (2023)

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Kaltenbach, L.; Martzloff, P.; Bambach, S. K.; Aizarani, N.; Mihlan, M.; Gavrilov, A.; Glaser, K. M.; Stecher, M.; Thünauer, R.; Thiriot, A. et al.; Heger, K.; Kierdorf, K.; Wienert, S.; von Andrian, U. H.; Schmidt-Supprian, M.; Nerlov, C.; Klauschen, F.; Roers, A.; Bajénoff, M.; Grün, D.; Lämmermann, T.: Slow integrin-dependent migration organizes networks of tissue-resident mast cells. Nature Immunology (2023)

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Publications

Journal Article (1509)