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Research

Publications since 2020

Lam, W. M. (First author) ; Gabernet, G. ; Poth, T. ; Sator-Schmitt, M. ; Oquendo, M. B. ; Walter, B. ; Lohr, S. ; De Ponti, A. ; Weiß, L. ; Schneider, M. ; Helm, D. ; Müller-Decker, K. ; Schirmacher, P. ; Heikenwälder, M. ; Klingmüller, U. ; Schneller, D. ; Geisler, F. ; Nahnsen, S. ; Angel, P. (Last author)
RAGE is a key regulator of ductular reaction-mediated fibrosis during cholestasis.
EMBO reports nn, nn (2025) [10.1038/s44319-024-00356-7]2025 BibTeX | EndNote: XML, Text | RIS

Jirát-Zió?kowska, N. ; Sulková, K. ; Kracíková, L. ; Androvi?, L. ; Havli?ek, D. ; Laga, R. ; Jirák, D.
Bio-responsive polymers for dual 31P/19F-magnetic resonance to detect reactive oxygen species in vivo
Communications materials 5(1), 178 (2024) [10.1038/s43246-024-00623-z]2024 DBCoverage BibTeX | EndNote: XML, Text | RIS

Wesener, M. C. ; Weiler, S. M. E. ; Bissinger, M. ; Klessinger, T. F. ; Rose, F. ; Merker, S. ; Luzarowski, M. ; Ruppert, T. ; Helm, B. ; Klingmüller, U. ; Schirmacher, P. ; Breuhahn, K.
CRKL Enhances YAP Signaling through Binding and JNK/JUN Pathway Activation in Liver Cancer.
International journal of molecular sciences 25(15), 8549 (2024) [10.3390/ijms25158549]2024 DBCoverage Files Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Tashev, S. A. ; Euchner, J. ; Yserentant, K. ; Hänselmann, S. ; Hild, F. ; Chmielewicz, W. ; Hummert, J. ; Schwörer, F. ; Tsopoulidis, N. ; Germer, S. ; Saßmannshausen, Z. ; Fackler, O. T. ; Klingmüller, U. (Last author) ; Herten, D.-P.
ProDOL: a general method to determine the degree of labeling for staining optimization and molecular counting.
Nature methods 21(9), 1708-1715 (2024) [10.1038/s41592-024-02376-6]2024 BibTeX | EndNote: XML, Text | RIS

Horvat, N. K. ; Chocarro, S. ; Marques, O. ; Bauer, T. A. ; Qiu, R. ; Diaz-Jimenez, A. ; Helm, B. ; Chen, Y. ; Sawall, S. ; Sparla, R. ; Su, L. ; Klingmüller, U. ; Barz, M. ; Hentze, M. W. ; Sotillo, R. (Last author) ; Muckenthaler, M. U.
Superparamagnetic Iron Oxide Nanoparticles Reprogram the Tumor Microenvironment and Reduce Lung Cancer Regrowth after Crizotinib Treatment.
ACS nano 18(17), 11025-11041 (2024) [10.1021/acsnano.3c08335]2024 BibTeX | EndNote: XML, Text | RIS

Dogan, D. Y. ; Urzica, E. I. ; Hornung, I. ; Kastl, P. ; Oguama, D. ; Fette, F. M. ; Nguyen, L. H. ; Rosenbauer, F. ; Zacharowski, K. ; Klingmüller, U. ; Gradhand, E. ; von Knethen, A. ; Popp, R. ; Fleming, I. ; Schrader, L. ; Steinbicker, A. U.
Hemojuvelin mediated hepcidin induction requires both bone morphogenetic protein type I receptors ALK2 and ALK3.
Blood advances 8(11), 2870-2879 (2024) [10.1182/bloodadvances.2023012322]2024 BibTeX | EndNote: XML, Text | RIS

Diaz-Jimenez, A. (First author) ; Ramos, M. (First author) ; Helm, B. ; Chocarro, S. ; Frey, D. L. ; Agrawal, S. ; Somogyi, K. ; Klingmüller, U. ; Lu, J. ; Sotillo, R. (Last author)
Concurrent inhibition of ALK and SRC kinases disrupts the ALK lung tumor cell proteome.
Drug resistance updates 74, 101081 (2024) [10.1016/j.drup.2024.101081]2024 BibTeX | EndNote: XML, Text | RIS

Richtmann, S. (First author) ; Marwitz, S. ; Muley, T. ; Koistinen, H. ; Christopoulos, P. ; Thomas, M. ; Kazdal, D. ; Allgäuer, M. ; Winter, H. ; Goldmann, T. ; Meister, M. ; Klingmüller, U. ; Schneider, M. A.
The pregnancy-associated protein glycodelin as a potential sex-specific target for resistance to immunotherapy in non-small cell lung cancer.
Translational research 272, 177-189 (2024) [10.1016/j.trsl.2024.02.007]2024 BibTeX | EndNote: XML, Text | RIS

Burbano de Lara, S. (First author) ; Kemmer, S. ; Biermayer, I. (First author) ; Feiler, S. ; Vlasov, A. ; D'Alessandro, L. A. ; Helm, B. ; Mölders, C. ; Dieter, Y. ; Ghallab, A. ; Hengstler, J. G. ; Körner, C. ; Matz-Soja, M. ; Götz, C. ; Damm, G. ; Hoffmann, K. ; Seehofer, D. ; Berg, T. ; Schilling, M. ; Timmer, J. ; Klingmüller, U. (Last author)
Basal MET phosphorylation is an indicator of hepatocyte dysregulation in liver disease.
Molecular systems biology 20(3), 187-216 (2024) [10.1038/s44320-023-00007-4]2024 DBCoverage BibTeX | EndNote: XML, Text | RIS

Chung, J. ; Boutin, S. ; Frey, D. L. ; Joachim, C. ; Mall, M. A. ; Sommerburg, O.
Nasal lavage microbiome, but not nasal swab microbiome, correlates with sinonasal inflammation in children with cystic fibrosis.
Journal of cystic fibrosis 23(2), 226-233 (2024) [10.1016/j.jcf.2023.12.011]2024 BibTeX | EndNote: XML, Text | RIS

Enukashvily, N. I. ; Ponomartsev, N. V. ; Ketkar, A. ; Suezov, R. ; Chubar, A. V. ; Prjibelski, A. D. ; Shafranskaya, D. D. ; Elmshäuser, S. ; Keber, C. U. ; Stefanova, V. N. ; Akopov, A. L. ; Klingmüller, U. ; Pfefferle, P. I. ; Stiewe, T. ; Lauth, M. ; Brichkina, A. I.
Pericentromeric satellite lncRNAs are induced in cancer-associated fibroblasts and regulate their functions in lung tumorigenesis.
Cell death & disease 14(1), 19 (2023) [10.1038/s41419-023-05553-1]2023 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Polenkowski, M. ; Allister, A. B. ; Burbano de Lara, S. ; Pierce, A. ; Geary, B. ; El Bounkari, O. ; Wiehlmann, L. ; Hoffmann, A. ; Whetton, A. D. ; Tamura, T. ; Tran, D. D. H.
THOC5 complexes with DDX5, DDX17, and CDK12 to regulate R loop structures and transcription elongation rate.
iScience 26(1), 105784 (2023) [10.1016/j.isci.2022.105784]2023 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Hiebinger, F. (First author) ; Kudulyte, A. ; Chi, H. ; Burbano De Lara, S. ; Ilic, D. ; Helm, B. ; Welsch, H. ; Dao Thi, V. L. ; Klingmüller, U. ; Binder, M. (Last author)
Tumour cells can escape antiproliferative pressure by interferon-? through immunoediting of interferon receptor expression.
Cancer cell international 23(1), 315 (2023) [10.1186/s12935-023-03150-y]2023 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Wolf, S. D. ; Ehlting, C. ; Müller-Dott, S. ; Poschmann, G. ; Petzsch, P. ; Lautwein, T. ; Wang, S. ; Helm, B. ; Schilling, M. ; Saez-Rodriguez, J. ; Vucur, M. ; Stühler, K. ; Köhrer, K. ; Tacke, F. ; Dooley, S. ; Klingmüller, U. ; Luedde, T. ; Bode, J. G.
Hepatocytes reprogram liver macrophages involving control of TGF-? activation, influencing liver regeneration and injury.
Hepatology communications 7(8), e0208 (2023) [10.1097/HC9.0000000000000208]2023 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Hammad, S. ; Ogris, C. ; Othman, A. ; Erdoesi, P. ; Schmidt-Heck, W. ; Biermayer, I. ; Helm, B. ; Gao, Y. ; Pioro?ska, W. ; Holland, C. H. ; D'Alessandro, L. A. ; de la Torre, C. ; Sticht, C. ; Al Aoua, S. ; Theis, F. J. ; Bantel, H. ; Ebert, M. P. ; Klingmüller, U. ; Hengstler, J. G. ; Dooley, S. ; Mueller, N. S.
Tolerance of repeated toxic injuries of murine livers is associated with steatosis and inflammation.
Cell death & disease 14(7), 414 (2023) [10.1038/s41419-023-05855-4]2023 DBCoverage BibTeX | EndNote: XML, Text | RIS

Polenkowski, M. ; Allister, A. B. ; Burbano de Lara, S. ; Soltau, M. ; Kendre, G. ; Tran, D. D. H.
Mapping alternative polyadenylation in human cells using direct RNA sequencing technology.
STAR Protocols 4(3), 102420 (2023) [10.1016/j.xpro.2023.102420]2023 DBCoverage BibTeX | EndNote: XML, Text | RIS

Samarin, J. (First author) ; Fabrowski, P. (First author) ; Kurilov, R. ; Nuskova, H. ; Hummel-Eisenbeiss, J. ; Pink, H. ; Li, N. ; Weru, V. ; Alborzinia, H. ; Yildiz, U. ; Grob, L. ; Täubert, M. J. ; Czech, M. ; Morgen, M. ; Brandstädter, C. ; Becker, K. ; Mao, L. ; Jayavelu, A. K. ; Goncalves, A. ; Uhrig, U. ; Seiler, J. S. ; Lyu, Y. ; Diederichs, S. ; Klingmüller, U. ; Muckenthaler, M. ; Kopp-Schneider, A. ; Teleman, A. ; Miller, A. ; Gunkel, P. N. (Last author)
Low level of antioxidant capacity biomarkers but not target overexpression predicts vulnerability to ROS-inducing drugs.
Redox Biology 62, 102639 (2023) [10.1016/j.redox.2023.102639]2023 DBCoverage BibTeX | EndNote: XML, Text | RIS

Heming, S. (First author) ; Hansen, P. (First author) ; Vlasov, A. ; Schwörer, F. ; Schaumann, S. ; Frolovaite, P. ; Lehmann, W.-D. ; Timmer, J. ; Schilling, M. (Last author) ; Helm, B. (Last author) ; Klingmüller, U. (Last author)
MSPypeline: a python package for streamlined data analysis of mass spectrometry-based proteomics.
Bioinformatics advances 2(1), vbac004 (2022) [10.1093/bioadv/vbac004]2022 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Gegner, H. M. ; Naake, T. ; Dugourd, A. ; Müller, T. (First author) ; Czernilofsky, F. ; Kliewer, G. ; Jäger, E. ; Helm, B. ; Kunze-Rohrbach, N. ; Klingmüller, U. ; Hopf, C. ; Müller-Tidow, C. ; Dietrich, S. ; Saez-Rodriguez, J. ; Huber, W. ; Hell, R. ; Poschet, G. ; Krijgsveld, J. (Last author)
Pre-analytical processing of plasma and serum samples for combined proteome and metabolome analysis
Frontiers in molecular biosciences 9, 961448 (2022) [10.3389/fmolb.2022.961448]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

Baur, K. ; Abdullah, Y. ; Mandl, C. ; Hölzl-Wenig, G. ; Shi, Y. ; Edelkraut, U. ; Khatri, P. ; Hagenston, A. M. ; Irmler, M. ; Beckers, J. ; Ciccolini, F.
A novel stem cell type at the basal side of the subventricular zone maintains adult neurogenesis
EMBO reports 23(9), e54078 (2022) [10.15252/embr.202154078]2022 BibTeX | EndNote: XML, Text | RIS

Gründing, A. R. ; Schneider, M. A. ; Richtmann, S. ; Kriegsmann, M. ; Winter, H. ; Martinez-Delgado, B. ; Varona, S. ; Liu, B. ; DeLuca, D. S. ; Held, J. ; Wrenger, S. ; Muley, T. ; Meister, M. ; Welte, T. ; Janciauskiene, S.
Lung Adenocarcinoma Cell Sensitivity to Chemotherapies: A Spotlight on Lipid Droplets and SREBF1 Gene.
Cancers 14(18), 4454 (2022) [10.3390/cancers14184454]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

Chakraborty, S. (First author) ; Andrieux, G. ; Kastl, P. ; Adlung, L. ; Altamura, S. ; Boehm, M. E. ; Schwarzmüller, L. ; Abdullah, Y. ; Wagner, M.-C. ; Helm, B. ; Gröne, H.-J. ; Lehmann, W.-D. ; Börries, M. ; Busch, H. ; Muckenthaler, M. U. ; Schilling, M. ; Klingmüller, U. (Last author)
Erythropoietin-driven dynamic proteome adaptations during erythropoiesis prevent iron overload in the developing embryo.
Cell reports 40(12), 111360 (2022) [10.1016/j.celrep.2022.111360]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

Dehlke, K. ; Krause, L. ; Tyufekchieva, S. ; Murtha-Lemekhova, A. ; Mayer, P. ; Vlasov, A. ; Klingmüller, U. ; Mueller, N. S. ; Hoffmann, K.
Predicting liver regeneration following major resection.
Scientific reports 12(1), 13396 (2022) [10.1038/s41598-022-16968-9]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

Budelmann, D. ; Laue, H. ; Weiss, N. ; Dahmen, U. ; D?Alessandro, L. A. ; Biermayer, I. ; Klingmüller, U. ; Ghallab, A. ; Hassan, R. ; Begher-Tibbe, B. ; Hengstler, J. G. ; Schwen, L. O.
Automated Detection of Portal Fields and Central Veins in Whole-Slide Images of Liver Tissue
Journal of pathology informatics 13, 100001 (2022) [10.1016/j.jpi.2022.100001]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

D'Alessandro, L. A. (First author) ; Klingmüller, U. ; Schilling, M. (Last author)
Deciphering signal transduction networks in the liver by mechanistic mathematical modelling.
Biochemical journal 479(12), 1361 - 1374 (2022) [10.1042/BCJ20210548]2022 BibTeX | EndNote: XML, Text | RIS

Theobald, V. ; Benjamin, N. ; Seyfarth, H.-J. ; Halank, M. ; Schneider, M. A. ; Richtmann, S. ; Hinderhofer, K. ; Xanthouli, P. ; Egenlauf, B. ; Seeger, R. ; Hoeper, M. M. ; Jonigk, D. ; Grünig, E. ; Eichstaedt, C. A.
Reduction of BMPR2 mRNA Expression in Peripheral Blood of Pulmonary Arterial Hypertension Patients: A Marker for Disease Severity?
Genes 13(5), 759 (2022) [10.3390/genes13050759]2022 DBCoverage BibTeX | EndNote: XML, Text | RIS

Polenkowski, M. ; Burbano de Lara, S. (First author) ; Allister, A. B. ; Nguyen, T. N. Q. ; Tamura, T. ; Tran, D. D. H.
Identification of Novel Micropeptides Derived from Hepatocellular Carcinoma-Specific Long Noncoding RNA.
International journal of molecular sciences 23(1), 58 (2021) [10.3390/ijms23010058]2021 DBCoverage BibTeX | EndNote: XML, Text | RIS

Adlung, L. (First author) ; Stapor, P. ; Tönsing, C. ; Schmiester, L. ; Schwarzmüller, L. E. ; Postawa, L. ; Wang, D. ; Timmer, J. ; Klingmüller, U. ; Hasenauer, J. ; Schilling, M. (Last author)
Cell-to-cell variability in JAK2/STAT5 pathway components and cytoplasmic volumes defines survival threshold in erythroid progenitor cells.
Cell reports 36(6), 109507 (2021) [10.1016/j.celrep.2021.109507]2021 DBCoverage BibTeX | EndNote: XML, Text | RIS

Mohapatra, S. R. (First author) ; Sadik, A. ; Sharma, S. ; Poschet, G. ; Gegner, H. M. ; Lanz, T. V. ; Lucarelli, P. ; Klingmüller, U. ; Platten, M. ; Heiland, I. ; Opitz, C. (Last author)
Hypoxia Routes Tryptophan Homeostasis Towards Increased Tryptamine Production.
Frontiers in immunology 12, 590532 (2021) [10.3389/fimmu.2021.590532]2021 DBCoverage Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Robichon, K. (First author) ; Maiwald, T. ; Schilling, M. (First author) ; Schneider, A. ; Willemsen, J. ; Salopiata, F. ; Teusel, M. T. ; Kreutz, C. ; Ehlting, C. ; Huang, J. ; Chakraborty, S. ; Huang, X. ; Damm, G. ; Seehofer, D. ; Lang, P. A. ; Bode, J. G. ; Binder, M. ; Bartenschlager, R. ; Timmer, J. ; Klingmüller, U. (Last author)
Identification of Interleukin1? as an Amplifier of Interferon alpha-induced Antiviral Responses.
PLoS pathogens 16(10), e1008461 - (2020) [10.1371/journal.ppat.1008461]2020 DBCoverage BibTeX | EndNote: XML, Text | RIS

Wessels, S. ; Muley, T. ; Christopoulos, P. ; Meister, M. ; Heinzmann-Groth, I. ; Warth, A. ; Herpel, E. ; Hummler, S. ; Klingmüller, U. ; Kuon, J. ; Heussel, C.-P. ; Eberhardt, R. ; Herth, F. J. F. ; Winter, H. ; Bischoff, H. ; Stenzinger, A. ; Reck, M. ; Huber, R. M. ; Thomas, M. ; Schneider, M. A.
Comprehensive serial biobanking in advanced NSCLC: feasibility, challenges and perspectives.
Translational Lung Cancer Research 9(4), 1000 - 1014 (2020) [10.21037/tlcr-20-137]2020 pmc Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Gremke, N. ; Polo, P. ; Dort, A. ; Schneikert, J. ; Elmshäuser, S. ; Brehm, C. ; Klingmüller, U. ; Schmitt, A. ; Reinhardt, H. C. ; Timofeev, O. ; Wanzel, M. ; Stiewe, T.
mTOR-mediated cancer drug resistance suppresses autophagy and generates a druggable metabolic vulnerability.
Nature Communications 11(1), 4684 (2020) [10.1038/s41467-020-18504-7]2020 DBCoverage BibTeX | EndNote: XML, Text | RIS

Kok, F. K. (First author) ; Rosenblatt, M. ; Teusel, M. (First author) ; Nizharadze, T. ; Goncalves Magalhaes, V. ; Dächert, C. ; Maiwald, T. ; Vlasov, A. ; Wäsch, M. ; Tyufekchieva, S. ; Hoffmann, K. ; Damm, G. ; Seehofer, D. ; Boettler, T. ; Binder, M. ; Timmer, J. ; Schilling, M. (Last author) ; Klingmüller, U. (Last author)
Disentangling molecular mechanisms regulating sensitization of interferon alpha signal transduction.
Molecular systems biology 16(7), e8955 (2020) [10.15252/msb.20198955]2020 DBCoverage BibTeX | EndNote: XML, Text | RIS

Nilsson, A. ; Haanstra, J. R. ; Engqvist, M. ; Gerding, A. ; Bakker, B. M. ; Klingmüller, U. ; Teusink, B. ; Nielsen, J.
Quantitative analysis of amino acid metabolism in liver cancer links glutamate excretion to nucleotide synthesis.
Proceedings of the National Academy of Sciences of the United States of America 117(19), 10294-10304 (2020) [10.1073/pnas.1919250117]2020 BibTeX | EndNote: XML, Text | RIS

Duerr, J. ; Leitz, D. H. W. ; Szczygiel, M. (First author) ; Dvornikov, D. ; Fraumann, S. G. ; Kreutz, C. ; Zadora, P. ; Seyhan Agircan, A. ; Konietzke, P. ; Engelmann, T. A. ; Hegermann, J. ; Mulugeta, S. ; Kawabe, H. ; Knudsen, L. ; Ochs, M. ; Rotin, D. ; Muley, T. ; Kreuter, M. ; Herth, F. J. F. ; Wielpütz, M. O. ; Beers, M. F. ; Klingmüller, U. ; Mall, M. A.
Conditional deletion of Nedd4-2 in lung epithelial cells causes progressive pulmonary fibrosis in adult mice.
Nature Communications 11(1), 2012 (2020) [10.1038/s41467-020-15743-6]2020 DBCoverage BibTeX | EndNote: XML, Text | RIS

Kim-Wanner, S.-Z. (First author) ; Assenov, Y. ; Nair, M. B. ; Weichenhan, D. ; Benner, A. ; Becker, N. ; Landwehr, K. ; Kuner, R. ; Sültmann, H. ; Esteller, M. ; Koch, I. ; Lindner, M. ; Meister, M. ; Thomas, M. ; Bieg, M. ; Klingmueller, U. ; Schlesner, M. ; Warth, A. ; Brors, B. ; Seifried, E. ; Bonig, H. ; Plass, C. ; Risch, A. ; Muley, T.
Genome-wide DNA methylation profiling in early stage I lung adenocarcinoma reveals predictive aberrant methylation in the promoter region of the long non-coding RNA PLUT - an exploratory study.
Journal of thoracic oncology 15(8), 1338-1350 (2020) [10.1016/j.jtho.2020.03.023]2020 BibTeX | EndNote: XML, Text | RIS

Giustarini, G. ; Huppelschoten, S. ; Barra, M. ; Oppelt, A. ; Wagenaar, L. ; Weaver, R. J. ; Bol-Schoenmakers, M. ; Smit, J. ; van de Water, B. ; Klingmueller, U. ; Pieters, R.
The hepatotoxic fluoroquinolone trovafloxacin disturbs TNF- and LPS-induced p65 nuclear translocation in vivo and in vitros.
Toxicology and applied pharmacology 391, 114915 (2020) [10.1016/j.taap.2020.114915]2020 BibTeX | EndNote: XML, Text | RIS

Weaver, R. J. ; Blomme, E. A. ; Chadwick, A. E. ; Copple, I. M. ; Gerets, H. H. J. ; Goldring, C. E. ; Guillouzo, A. ; Hewitt, P. G. ; Ingelman-Sundberg, M. ; Jensen, K. G. ; Juhila, S. ; Klingmüller, U. ; Labbe, G. ; Liguori, M. J. ; Lovatt, C. A. ; Morgan, P. ; Naisbitt, D. J. ; Pieters, R. H. H. ; Snoeys, J. ; van de Water, B. ; Williams, D. P. ; Park, B. K.
Managing the challenge of drug-induced liver injury: a roadmap for the development and deployment of preclinical predictive models.
Nature reviews / Drug discovery Drug discovery [...] 19(2), 131-148 (2020) [10.1038/s41573-019-0048-x]2020 BibTeX | EndNote: XML, Text | RIS

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