2024

Müller, S., Kröger, C., Schultze, J.L., and Aschenbrenner, A.C. (2024). Whole blood stimulation as a tool for studying the human immune system. Eur J Immunol  54, 2350519 https://doi.org/10.1002/eji.202350519 [Open Access].

Müller, L., Nasr, A.R., Jux, B., Makdissi, N., Trowbridge, J.W., Schmidt, S.V., Schultze, J.L., Quast, T., Schulte-Schrepping, J., Kolanus, W., and Mass, E. (2024). Differential impact of high-salt levels in vitro and in vivo on macrophage core functions. Molecular Biology Reports  51, 343 https://doi.org/10.1007/s11033-024-09295-x [Open Access]

Torres, S.V., Man, K., Elmzzahi, T., Malko, D., Chisanga, D., Liao, Y., Prout, M., Abbott, C.A., Tang, A., Wu, J., Becker, M., Mason, T., Haynes, V., Tsui, C., Shakiba, M.H., Hamada, D., Britt, K., Groom, J.R., McColl, S.R., Shi, W., Watt, M.J., Le Gros, G., Pal, B., Beyer, M., Vasanthakumar, A., and Kallies, A. (2024). Two regulatory T cell populations in the visceral adipose tissue shape systemic metabolism. Nature Immunology  25, 496-511 10.1038/s41590-024-01753-9 [Open Access]

Liu, D., Aziz, N. A., Imtiaz, M. A., Pehlivan, G., Breteler, M. M. B. (2024) Associations of measured and genetically predicted leukocyte telomere length with vascular phenotypes: a population-based study. GeroScience, 46 (2), 1947-1970. https://doi.org/10.1007/s11357-023-00914-2 [Open Access]

Fandrey, C. I., Konopka, P., Jentzsch, M., Zackria, A., Maasewerd, S., Latz, E., Schmid-Burgk, J. L. (2024) Cell Type-Agnostic Optical Perturbation Screening Using Nuclear In-Situ Sequencing (NIS-Seq). bioRxiv 2024.01.18.576210. https://doi.org/10.1101/2024.01.18.576210

Sieckmann, K., Winnerling, N., Silva Ribeiro, D. J., Kardinal, R., Steinheuer, L. M., Schermann, G., Klausen, C., Blank-Stein, N., Schulte-Schrepping, J., Osei-Sarpong, C., Becker, M., Bonaguro, L., Beyer, M., Thurley, K., May-Simera, H., Zurkovic, J., Thiele, C., Ruiz de Almodovar, C., Mass, E., Wachten, D. (2024) BBSome-dependent ciliary Hedgehog signaling governs cell fate in the white adipose tissue. bioRxiv 2024.01.25.576526. https://doi.org/10.1101/2024.01.25.576526‍

Silva Ribeiro, D. J., Yuksel, S., Dolf, A., & Wachten, D. (2024). Isolation and Flow Cytometry Analysis of Macrophages from White Adipose Tissue. Methods Mol Biol, 2713, 149-158. https://doi.org/10.1007/978-1-0716-3437-0_10

2023
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Domingos, C., Müller, F. E., Passlick, S., Wachten, D., Ponimaskin, E., Schwarz, M. K., Schoch, S., Zeug, A., & Henneberger, C. (2023). Induced Remodelling of Astrocytes In Vitro and In Vivo by Manipulation of Astrocytic RhoA Activity. Cells, 12(2), 331. https://www.mdpi.com/2073-4409/12/2/331 [Open Access]

Nikolka, F., Karagöz, M. S., Nassef, M. Z., Hiller, K., Steinert, M., & Cordes, T. (2023). The Virulence Factor Macrophage Infectivity Potentiator (Mip) Influences Branched-Chain Amino Acid Metabolism and Pathogenicity of Legionella pneumophila. Metabolites, 13(7), 834. https://www.mdpi.com/2218-1989/13/7/834 [Open Access]

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Carraro, C., Bonaguro, L., Srinivasa, R., van Uelft, M., Isakzai, V., Schulte-Schrepping, J., Gambhir, P., Elmzzahi, T., Montgomery, J. V., Hayer, H., Li, Y., Theis, H., Kraut, M., Mahbubani, K. T., Aschenbrenner, A. C., König, I., Fava, E., Fried, H.-U., De Domenico, E., Beyer, M., Saglam, A., & Schultze, J. L. (2023). Chromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq. Cell Reports Methods, 3(10), 100598. https://doi.org/10.1016/j.crmeth.2023.100598 [Open Access]

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Wunderling, K., Zurkovic, J., Zink, F., Kuerschner, L., & Thiele, C. (2023). Triglyceride cycling enables modification of stored fatty acids. Nat Metab, 5(4), 699-709. https://doi.org/10.1038/s42255-023-00769-z [Open Access]

Yuzeir, A., Bejarano, D. A., Grein, S., Hasenauer, J., Schlitzer, A., & Yu, J. (2023). IntestLine: a shiny-based application to map the rolled intestinal tissue onto a line. Bioinformatics, 39(4). https://doi.org/10.1093/bioinformatics/btad140 [Open Access]

Nickenig, M., Mangan, M. S. J., Lee, H. E., Symeonidis, K., Henne, A., Kaiser, R., Geißmar, E., Garritsen, H., Abdullah, Z., Hiller, K., Latz, E., & Lauterbach, M. A. (2023). Cutting Edge: STING Induces ACLY Activation and Metabolic Adaptations in Human Macrophages through TBK1. J Immunol. https://doi.org/10.4049/jimmunol.2200835

Lakrisenko, P., Stapor, P., Grein, S., Paszkowski, L., Pathirana, D., Frohlich, F., Lines, G. T., Weindl, D., & Hasenauer, J. (2023). Efficient computation of adjoint sensitivities at steady-state in ODE models of biochemical reaction networks. PLoS Comput Biol, 19(1), e1010783. https://doi.org/10.1371/journal.pcbi.1010783 [Open Access]

Hackstein, C. P., Spitzer, J., Symeonidis, K., Horvatic, H., Bedke, T., Steglich, B., Klein, S., Assmus, L. M., Odainic, A., Szlapa, J., Kessler, N., Beyer, M., Schmithausen, R., Latz, E., Flavell, R. A., Garbi, N., Kurts, C., Kummerer, B. M., Trebicka, J., Roers, A., Huber, S., Schmidt, S. V., Knolle, P. A., & Abdullah, Z. (2023). Interferon-induced IL-10 drives systemic T-cell dysfunction during chronic liver injury. J Hepatol, 79(1), 150-166. https://doi.org/10.1016/j.jhep.2023.02.026 [Open Access]

Fox, F. A. U., Liu, D., Breteler, M. M. B., & Aziz, N. A. (2023). Physical activity is associated with slower epigenetic ageing-Findings from the Rhineland study. Aging Cell, 22(6), e13828. https://doi.org/10.1111/acel.13828 [Open Access]

Liu, D., Aziz, N. A., Pehlivan, G., & Breteler, M. M. B. (2023). Cardiovascular correlates of epigenetic aging across the adult lifespan: a population-based study. Geroscience, 45(3), 1605-1618. https://doi.org/10.1007/s11357-022-00714-0 [Open Access]

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Mass, E., Nimmerjahn, F., Kierdorf, K., & Schlitzer, A. (2023). Tissue-specific macrophages: how they develop and choreograph tissue biology. Nat Rev Immunol, 23(9), 563-579. https://doi.org/10.1038/s41577-023-00848-y [Open Access]

Swietlik, J. J., Barthel, S., Falcomata, C., Fink, D., Sinha, A., Cheng, J., Ebner, S., Landgraf, P., Dieterich, D. C., Daub, H., Saur, D., & Meissner, F. (2023). Cell-selective proteomics segregates pancreatic cancer subtypes by extracellular proteins in tumors and circulation. Nat Commun, 14(1), 2642. https://doi.org/10.1038/s41467-023-38171-8 [Open Access]

Alamoudi, E., Schälte, Y., Müller, R., Starruß, J., Bundgaard, N., Graw, F., Brusch, L., & Hasenauer, J. (2023). FitMultiCell: simulating and parameterizing computational models of multi-scale and multi-cellular processes. Bioinformatics, 39(11). https://doi.org/10.1093/bioinformatics/btad674 [Open Access]

Schälte, Y., Fröhlich, F., Jost, P. J., Vanhoefer, J., Pathirana, D., Stapor, P., Lakrisenko, P., Wang, D., Raimúndez, E., Merkt, S., Schmiester, L., Städter, P., Grein, S., Dudkin, E., Doresic, D., Weindl, D., & Hasenauer, J. (2023). pyPESTO: a modular and scalable tool for parameter estimation for dynamic models. Bioinformatics, 39(11). https://doi.org/10.1093/bioinformatics/btad711 [Open Access]

Gnirck, A. C., Philipp, M. S., Waterhölter, A., Wunderlich, M., Shaikh, N., Adamiak, V., Henneken, L., Kautz, T., Xiong, T., Klaus, D., Tomczyk, P., Al-Bahra, M. M., Menche, D., Walkenhorst, M., Lantz, O., Willing, A., Friese, M. A., Huber, T. B., Krebs, C. F., Panzer, U., Kurts, C., & Turner, J. E. (2023). Mucosal-associated invariant T cells contribute to suppression of inflammatory myeloid cells in immune-mediated kidney disease. Nat Commun, 14(1), 7372. https://doi.org/10.1038/s41467-023-43269-0 [Open Access]

Heuser-Loy, C., Baumgart, A. K., Hackstein, C. P., Courrèges, C. J. F., Philipp, M. S., Thaiss, C. A., Holland, T., Evaristo, C., Garbi, N., & Kurts, C. (2023). Conditional NKT Cell Depletion in Mice Reveals a Negative Feedback Loop That Regulates CTL Cross-Priming. J Immunol. https://doi.org/10.4049/jimmunol.2300662

Liu, D., Aziz, N. A., Landstra, E. N., & Breteler, M. M. B. (2023). The lipidomic correlates of epigenetic aging across the adult lifespan: A population-based study. Aging Cell, 22(9), e13934. https://doi.org/10.1111/acel.13934 [Open Access]

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2022

Hansen, J. N., Kaiser, F., Leyendecker, P., Stüven, B., Krause, J.-H., Derakhshandeh, F., Irfan, J., Sroka, T. J., Preval, K. M., Desai, P. B., Kraut, M., Theis, H., Drews, A.-D., De-Domenico, E., Händler, K., Pazour, G. J., Henderson, D. J. P., Mick, D. U., & Wachten, D. (2022). A cAMP signalosome in primary cilia drives gene expression and kidney cyst formation. EMBO reports, 23(8), e54315. https://doi.org/10.15252/embr.202154315 [Open Access]

Henne, A., Vigh, A., Martens, A., Nonnenmacher, Y., Ohm, M., Hosseini, S., More, T. H., Lauterbach, M. A., Garritsen, H., Korte, M., He, W., & Hiller, K. (2022). SiMeEx, a simplified method for metabolite extraction of adherent mammalian cells. Front Mol Biosci, 9, 1084060. https://doi.org/10.3389/fmolb.2022.1084060 [Open Access]

More, T. H., Mozafari, B., Märtens, A., Herr, C., Lepper, P. M., Danziger, G., Volk, T., Hoersch, S., Krawczyk, M., Guenther, K., Hiller, K., & Bals, R. (2022). Plasma Metabolome Alterations Discriminate between COVID-19 and Non-COVID-19 Pneumonia. Metabolites, 12(11), 1058. https://www.mdpi.com/2218-1989/12/11/1058 [Open Access]

Malik, M. N. H., Waqas, S. F.-u.-H., Zeitvogel, J., Cheng, J., Geffers, R., Gouda, Z. A.-E., Elsaman, A. M., Radwan, A. R., Schefzyk, M., Braubach, P., Auber, B., Olmer, R., Müsken, M., Roesner, L. M., Gerold, G., Schuchardt, S., Merkert, S., Martin, U., Meissner, F., Werfel, T., & Pessler, F. (2022). Congenital deficiency reveals critical role of ISG15 in skin homeostasis. The Journal of Clinical Investigation, 132(3). https://doi.org/10.1172/JCI141573 [Open Access]

Georg, P., Astaburuaga-García, R., Bonaguro, L., ..., Schultze, J. L., Aschenbrenner, A. C., Thibeault, C., Kurth, F., Sander, L. E., Blüthgen, N., & Sawitzki, B. (2022). Complement activation induces excessive T cell cytotoxicity in severe COVID-19. Cell, 185(3), 493-512.e425. https://doi.org/10.1016/j.cell.2021.12.040 [Open Access]

Li, Q., Wang, Y., Sun, Q., Knopf, J., Herrmann, M., Lin, L., Jiang, J., Shao, C., Li, P., He, X., Hua, F., Niu, Z., Ma, C., Zhu, Y., Ippolito, G., Piacentini, M., Estaquier, J., Melino, S., Weiss, F. D., Andreano, E., Latz, E., Schultze, J. L., Rappuoli, R., Mantovani, A., Mak, T. W., Melino, G., & Shi, Y. (2022). Immune response in COVID-19: what is next? Cell Death & Differentiation, 29(6), 1107-1122. https://doi.org/10.1038/s41418-022-01015-x [Open Access]

Münzker, J., Haase, N., Till, A., Sucher, R., Haange, S.-B., Nemetschke, L., Gnad, T., Jäger, E., Chen, J., Riede, S. J., Chakaroun, R., Massier, L., Kovacs, P., Ost, M., Rolle-Kampczyk, U., Jehmlich, N., Weiner, J., Heiker, J. T., Klöting, N., Seeger, G., Morawski, M., Keitel, V., Pfeifer, A., von Bergen, M., Heeren, J., Krügel, U., & Fenske, W. K. (2022). Functional changes of the gastric bypass microbiota reactivate thermogenic adipose tissue and systemic glucose control via intestinal FXR-TGR5 crosstalk in diet-induced obesity. Microbiome, 10(1), 96. https://doi.org/10.1186/s40168-022-01264-5 [Open Access]

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Jeong, I., Hansen, J. N., Wachten, D., & Jurisch-Yaksi, N. (2022). Measurement of ciliary beating and fluid flow in the zebrafish adult telencephalon. STAR Protocols, 3(3), 101542. https://doi.org/10.1016/j.xpro.2022.101542 [Open Access]

Bonaguro, L., Schulte-Schrepping, J., Ulas, T., Aschenbrenner, A. C., Beyer, M., & Schultze, J. L. (2022). A guide to systems-level immunomics. Nature Immunology, 23(10), 1412-1423. https://doi.org/10.1038/s41590-022-01309-9 [Open Access]

Bonaguro, L., Schulte-Schrepping, J., Carraro, C., Sun, L. L., Reiz, B., Gemünd, I., Saglam, A., Rahmouni, S., Georges, M., Arts, P., Hoischen, A., Joosten, L. A. B., van de Veerdonk, F. L., Netea, M. G., Händler, K., Mukherjee, S., Ulas, T., Schultze, J. L., & Aschenbrenner, A. C. (2022). Human variation in population-wide gene expression data predicts gene perturbation phenotype. iScience, 25(11), 105328. https://doi.org/10.1016/j.isci.2022.105328 [Open Access]

Heinz, A., Nonnenmacher, Y., Henne, A., Khalil, M. A., Bejkollari, K., Dostert, C., Hosseini, S., Goldmann, O., He, W., Palorini, R., Verschueren, C., Korte, M., Chiaradonna, F., Medina, E., Brenner, D., & Hiller, K. (2022). Itaconate controls its own synthesis via feedback-inhibition of reverse TCA cycle activity at IDH2. Biochim Biophys Acta Mol Basis Dis, 1868(12), 166530. https://doi.org/10.1016/j.bbadis.2022.166530 [Open Access]

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Orozco-Ruiz, X., Anesi, A., Mattivi, F., & Breteler, M. M. B. (2022). Branched-Chain and Aromatic Amino Acids Related to Visceral Adipose Tissue Impact Metabolic Health Risk Markers. J Clin Endocrinol Metab, 107(7), e2896-e2905. https://doi.org/10.1210/clinem/dgac160 [Open Access]

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He, W., Henne, A., Lauterbach, M., Geissmar, E., Nikolka, F., Kho, C., Heinz, A., Dostert, C., Grusdat, M., Cordes, T., Harm, J., Goldmann, O., Ewen, A., Verschueren, C., Blay-Cadanet, J., Geffers, R., Garritsen, H., Kneiling, M., Holm, C. K., Metallo, C. M., Medina, E., Abdullah, Z., Latz, E., Brenner, D., & Hiller, K. (2022). Mesaconate is synthesized from itaconate and exerts immunomodulatory effects in macrophages. Nat Metab, 4(5), 524-533. https://doi.org/10.1038/s42255-022-00565-1 [Open Access]

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Sieckmann, K., Winnerling, N., Huebecker, M., Leyendecker, P., Juliana Silva Ribeiro, D., Gnad, T., Pfeifer, A., Wachten, D., & Hansen, J. N. (2022). AdipoQ-a simple, open-source software to quantify adipocyte morphology and function in tissues and in vitro. Mol Biol Cell, 33(12), br22. https://doi.org/10.1091/mbc.E21-11-0592 [Open Access]

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2021

Krämer, B., Knoll, R., Bonaguro, L., ToVinh, M., ..., Aschenbrenner, A. C., Schultze, J. L., & Nattermann, J. (2021). Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19. Immunity, 54(11), 2650-2669.e2614. https://doi.org/10.1016/j.immuni.2021.09.002 [Open Access]

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