Publications

Journal Article

Krämer, A.; Durumeric, A. E. P.; Charron, N. E.; Chen, Y.; Clementi , C.; Noé , F.: Statistically Optimal Force Aggregation for Coarse-Graining Molecular Dynamics. The Journal of Physical Chemistry Letters 14 (17), pp. 3970 - 3979 (2023)

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De Maio, N.; Kalaghatgi, P.; Turakhia, Y.; Corbett-Detig, R.; Quang Minh, B.; Goldman, N.: Maximum likelihood pandemic-scale phylogenetics. Nature Genetics 55 (5), pp. 746 - 752 (2023)

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Kusová, A.; Steinbachová, L.; Přerovská, T.; Záveská Drábková, L.; Paleček, J.; Khan, A.; Rigóová, G.; Gadiou, Z.; Jourdain, C.; Stricker, T. et al.; Schubert, D.; Honys, D.; Procházková Schrumpfová, P.: Completing the TRB family: newly characterized members show ancient evolutionary origins and distinct localization, yet similar interactions. Plant Molecular Biology 112 (1-2), pp. 61 - 83 (2023)

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Rezvani, M.; Vallier, L.; Guillot, A.: Modeling Nonalcoholic Fatty Liver Disease in the Dish Using Human-Specific Platforms: Strategies and Limitations. Cellular and Molecular Gastroenterology and Hepatology 15 (5), pp. 1135 - 1145 (2023)

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Bouabid, C.; Rabhi, S.; Thedinga, K.; Barel, G.; Tnani, H.; Rabhi , I.; Benkahla, A.; Herwig, R.; Guizani-Tabbane, L.: Host M-CSF induced gene expression drives changes in susceptible and resistant mice-derived BMdMs upon Leishmania major infection. Frontiers in immunology 14, 1111072 (2023)

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Messner, C. B.; Demichev, V.; Muenzner, J.; Aulakh, S. K.; Barthel, N.; Röhl, A.; Herrera-Domínguez, L.; Egger, A.-S.; Kamrad, S.; Hou, J. et al.; Tan, G.; Lemke, O.; Calvani, E.; Szyrwiel, L.; Mülleder, M.; Lilley, K. S.; Boone, C.; Kustatscher, G.; Ralser, M.: The proteomic landscape of genome-wide genetic perturbations. Cell 186 (9), pp. 2018 - 2034 (2023)

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Tsaytler, P.; Liu, J.; Blaess, G.; Schifferl, D.; Veenvliet, J. V.; Wittler, L.; Timmermann, B.; Herrmann, B. G.; Koch, F.: BMP4 triggers regulatory circuits specifying the cardiac mesoderm lineage. Development 150 (10), Article dev.201450 (2023)

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Stellmach, C.; Sass, J.; Auber, B.; Boeker, M.; Wienker, T. F.; Heidel, A. J.; Benary, M.; Schumacher, S.; Ossowski, S.; Klauschen, F. et al.; Möller , Y.; Schmutzler, R.; Ustjanzew, A.; Werner, P.; Tomczak, A.; Hölter, T.; Thun, S.: Creation of a structured molecular genomics report for Germany as a local adaption of HL7's Genomic Reporting Implementation Guide. Journal of the American Medical Informatics Association 30 (6), pp. 1179 - 1189 (2023)

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Hartl, J.; Kurth, F.; Kappert, K.; Horst, D.; Mülleder, M.; Hartmann, G.; Ralser, M.: Quantitative protein biomarker panels: a path to improved clinical practice through proteomics. Embo Molecular Medicine 15, e16061 (2023)

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Melo, U. S.; Jatzlau, J.; Prada-Medina, C. A.; Flex, E.; Hartmann, S.; Ali, S.; Schöpflin, R.; Bernardini, L.; Ciolfi, A.; Moeinzadeh, H. et al.; Klever, M.-K.; Altay, A.; Vallecillo-García, P.; Carpentieri, G.; Delledonne, M.; Ort, M.-J.; Schwestka, M.; Battista Ferrero, G.; Tartaglia, M.; Brusco, A.; Gossen, M.; Strunk, D.; Geißler, S.; Mundlos, S.; Stricker, S.; Knaus, P.; Giorgio, E.; Spielmann, M.: Enhancer hijacking at the ARHGAP36 locus is associated with connective tissue to bone transformation. Nature Communications 14 (1), 2034 (2023)

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Jia, J.; Hilal, T.; Bohnsack, K. E.; Chernev, A.; Tsao, N.; Bethmann, J.; Arumugam, A.; Parmely, L.; Holton, N.; Loll, B. et al.; Mosammaparast, N.; Bohnsack, M. T.; Urlaub, H.; Wahl, M. C.: Extended DNA threading through a dual-engine motor module of the activating signal co-integrator 1 complex. Nature Communications 14, 1886 (2023)

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Kotsaris, G.; Qazi, T. H.; Bucher, C. H.; Zahid, H.; Pöhle-Kronawitter, S.; Ugorets, V.; Jarassier, W.; Börno, S.; Timmermann, B.; Giesecke-Thiel, C. et al.; Economides, A. N.; Le Grand, F.; Vallecillo-García, P.; Knaus, P.; Geissler, S.; Stricker, S.: Odd skipped-related 1 controls the pro-regenerative response of fibro-adipogenic progenitors. npj Regenerative Medicine 8 (1), 19 (2023)

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Mishra, H.; Schlack-Leigers, C.; Lim, E. L.; Thieck, O.; Magg, T.; Raedler, J.; Wolf, C.; Klein, C.; Ewers, H.; Lee-Kirsch, M. A. et al.; Meierhofer, D.; Hauck, F.; Majer, O.: Endosome dysfunction leads to gain-of-function TLR7 and human lupus. bioRxiv (Preprint Server) (2023)

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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 (4), pp. 579 - 591 (2023)

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Kibar, G.; Vingron, M.: Prediction of protein–protein interactions using sequences ofintrinsically disordered regions. Proteins: Structure, Function, and Bioinformatics 91 (7), pp. 980 - 990 (2023)

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Volkenandt, S.; Imhof, P.: Comparison of Empirical Zn2+ Models in Protein–DNA Complexes. biophysica 3 (1), pp. 214- - 230 (2023)

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Cova, G.; Glaser, J.; Schöpflin, R.; Ali, S.; Prada-Medina, C. A.; Franke, M.; Falcone, R.; Federer, M.; Ponzi, E.; Ficarella, R. et al.; Novara, F.; Wittler, L.; Timmermann, B.; Gentile, M.; Zuffardi, O.; Spielmann, M.; Mundlos, S.: Combinatorial effects on gene expression at the Lbx1/Fgf8 locus resolve Split-Hand/Foot Malformation type 3. Nature Communications 14 (1), Article 1475 (2023)

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Brevini, T.; Maes, M.; Webb, G. J.; Fuchs, C. D.; Buescher, G.; Wang, L.; Griffiths, C.; Brown, M. L.; Scott III, W. E.; Pereyra-Gerber, P. et al.; Gelson, W. T. H.; ...; Vallier, L.; Sampaziotis, F.: FXR inhibition may protect from SARS-CoV-2 infection by reducing ACE2. Nature 615 (7950), pp. 134 - 142 (2023)

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Kamrad, S.; Correia-Melo, C.; Szyrwiel, L.; Kaur Aulakh, S.; Bähler, J.; Demichev, V.; Mülleder, M.; Ralser, M.: Metabolic heterogeneity and cross-feeding within isogenic yeast populations captured by DILAC. Nature Microbiology 8, pp. 441 - 454 (2023)

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Pan, C.; Rahn , R.; Heller, D.; Reinert, K.: Linear: a framework to enable existing software to resolve structural variants in long reads with flexible and efficient alignment-free statistical models. Briefings in Bioinformatics 24 (2), bbad071 (2023)

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Journal Article (77)