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Article

Subcellular mRNA kinetic modeling reveals nuclear retention as rate-limiting.
Steinbrecht, D., Minia, I., Milek, M., Meisig, J., Blüthgen, N. and Landthaler, M.
Molecular Systems Biology 20 (12): 1346-1371. 2 December 2024

Effective inhibitor removal from wastewater samples increases sensitivity of RT-dPCR and sequencing analyses and enhances the stability of wastewater-based surveillance.
Linzner, N., Bartel, A., Schumacher, V., Grau, J.H., Wyler, E., Preuß, H., Garske, S., Bitzegeio, J., Kirst, E.B., Liere, K., Hoppe, S., Borodina, T.A., Altmüller, J., Landthaler, M., Meixner, M., Sagebiel, D. and Böckelmann, U.
Microorganisms 12 (12): 2475. December 2024

Neural network-assisted humanisation of COVID-19 hamster transcriptomic data reveals matching severity states in human disease.
Friedrich, V.D., Pennitz, P., Wyler, E., Adler, J.M., Postmus, D., Müller, K., Teixeira Alves, L.G., Prigann, J., Pott, F., Vladimirova, D., Hoefler, T., Goekeri, C., Landthaler, M., Goffinet, C., Saliba, A.E., Scholz, M., Witzenrath, M., Trimpert, J., Kirsten, H. and Nouailles, G.
EBioMedicine 108 : 105312. October 2024

Gut microbiota dysbiosis is associated with altered tryptophan metabolism and dysregulated inflammatory response in COVID-19.
Essex, M., Millet Pascual-Leone, B.L., Löber, U., Kuhring, M., Zhang, B., Brüning, U., Fritsche-Guenther, R., Krzanowski, M., Fiocca Vernengo, F., Brumhard, S., Röwekamp, I., Bielecka, A.A., Lesker, T.R., Wyler, E., Landthaler, M., Mantei, A., Meisel, C., Caesar, S., Thibeault, C., Corman, V.M., Marko, L., Suttorp, N., Strowig, T., Kurth, F., Sander, L.E., Li, Y., Kirwan, J.A., Forslund, S.K. and Opitz, B.
NPJ Biofilms and Microbiomes 10 (1): 66. 1 August 2024

Pathogen dynamics and discovery of novel viruses and enzymes by deep nucleic acid sequencing of wastewater.
Wyler, E., Lauber, C., Manukyan, A., Deter, A., Quedenau, C., Teixeira Alves, L.G., Wylezich, C., Borodina, T., Seitz, S., Altmüller, J. and Landthaler, M.
Environment International 190 : 108875. August 2024

Single-cell RNA-sequencing of RVFV infection.
Wyler, E.
Methods in Molecular Biology 2824 : 361-372. August 2024

A single-dose MCMV-based vaccine elicits long-lasting immune protection in mice against distinct SARS-CoV-2 variants.
Metzdorf, K., Jacobsen, H., Kim, Y., Teixeira Alves, L.G., Kulkarni, U., Brdovčak, M.C., Materljan, J., Eschke, K., Chaudhry, M.Z., Hoffmann, M., Bertoglio, F., Ruschig, M., Hust, M., Šustić, M., Krmpotić, A., Jonjić, S., Widera, M., Ciesek, S., Pöhlmann, S., Landthaler, M. and Čičin-Šain, L.
Frontiers in Immunology 15 : 1383086. 25 July 2024

Grainyhead-like 2 deficiency and kidney cyst growth in a mouse model.
Yurtdas, Z.Y., Kilic, E., Boor, P., Wyler, E., Landthaler, M., Jung, K. and Schmidt-Ott, K.M.
Journal of the American Society of Nephrology 35 (7): 838-853. July 2024

Single-cell-resolved interspecies comparison shows a shared inflammatory axis and a dominant neutrophil-endothelial program in severe COVID-19.
Peidli, S., Nouailles, G., Wyler, E., Adler, J.M., Kunder, S., Voß, A., Kazmierski, J., Pott, F., Pennitz, P., Postmus, D., Teixeira Alves, L.G., Goffinet, C., Gruber, A.D., Blüthgen, N., Witzenrath, M., Trimpert, J., Landthaler, M. and Praktiknjo, S.D.
Cell Reports 43 (6): 114328. 25 June 2024

Despite the odds: formation of the SARS-CoV-2 methylation complex.
Matsuda, A., Plewka, J., Rawski, M., Mourão, A., Zajko, W., Siebenmorgen, T., Kresik, L., Lis, K., Jones, A.N., Pachota, M., Karim, A., Hartman, K., Nirwal, S., Sonani, R., Chykunova, Y., Minia, I., Mak, P., Landthaler, M., Nowotny, M., Dubin, G., Sattler, M., Suder, P., Popowicz, G.M., Pyrć, K. and Czarna, A.
Nucleic Acids Research 52 (11): 6441-6458. 24 June 2024

AI-guided pipeline for protein-protein interaction drug discovery identifies an SARS-CoV-2 inhibitor.
Trepte, P., Secker, C., Olivet, J., Blavier, J., Kostova, S., Maseko, S.B., Minia, I., Silva Ramos, E., Cassonnet, P., Golusik, S., Zenkner, M., Beetz, S., Liebich, M.J., Scharek, N., Schutz, A., Sperling, M., Lisurek, M., Wang, Y., Spirohn, K., Hao, T., Calderwood, M.A., Hill, D.E., Landthaler, M., Choi, S.G., Twizere, J.C., Vidal, M. and Wanker, E.E.
Molecular Systems Biology 20 (4): 428-457. 2 April 2024

Proteomic and transcriptomic profiling of brainstem, cerebellum and olfactory tissues in early- and late-phase COVID-19.
Radke, J., Meinhardt, J., Aschman, T., Chua, R.L., Farztdinov, V., Lukassen, S., Ten, F.W., Friebel, E., Ishaque, N., Franz, J., Huhle, V.H., Mothes, R., Peters, K., Thomas, C., Schneeberger, S., Schumann, E., Kawelke, L., Jünger, J., Horst, V., Streit, S., von Manitius, R., Körtvélyessy, P., Vielhaber, S., Reinhold, D., Hauser, A.E., Osterloh, A., Enghard, P., Ihlow, J., Elezkurtaj, S., Horst, D., Kurth, F., Müller, M.A., Gassen, N.C., Melchert, J., Jechow, K., Timmermann, B., Fernandez-Zapata, C., Böttcher, C., Stenzel, W., Krüger, E., Landthaler, M., Wyler, E., Corman, V., Stadelmann, C., Ralser, M., Eils, R., Heppner, F.L., Mülleder, M., Conrad, C. and Radbruch, H.
Nature Neuroscience 27 (3): 409-420. March 2024

Protective role of the HSP90 inhibitor, STA-9090, in lungs of SARS-CoV-2-infected Syrian golden hamsters.
Teixeira Alves, L.G., Baumgardt, M., Langner, C., Fischer, M., Maria Adler, J., Bushe, J., Firsching, T.C., Mastrobuoni, G., Grobe, J., Hoenzke, K., Kempa, S., Gruber, A.D., Hocke, A.C., Trimpert, J., Wyler, E. and Landthaler, M.
BMJ Open Respiratory Research 11 (1) 29 February 2024

Herpes simplex virus type 1 modifies the protein composition of extracellular vesicles to promote neurite outgrowth and neuroinfection.
Sun, G., Kropp, K.A., Kirchner, M., Plückebaum, N., Selich, A., Serrero, M., Dhingra, A., Cabrera, J.R., Ritter, B., Bauerfeind, R., Wyler, E., Landthaler, M., Schambach, A., Sodeik, B., Mertins, P. and Viejo-Borbolla, A.
mBio 15 (2): e0330823. 14 February 2024

Regulation of lymphoid-myeloid lineage bias through Regnase-1/3-mediated control of Nfkbiz.
Uehata, T., Yamada, S., Ori, D., Vandenbon, A., Giladi, A., Jelinski, A., Murakawa, Y., Watanabe, H., Takeuchi, K., Toratani, K., Mino, T., Kiryu, H., Standley, D.M., Tsujimura, T., Ikawa, T., Kondoh, G., Landthaler, M., Kawamoto, H., Rodewald, H.R., Amit, I., Yamamoto, R., Miyazaki, M. and Takeuchi, O.
Blood 143 (3): 243-257. 18 January 2024

The interactive complex between cytomegalovirus kinase vCDK/pUL97 and host factors CDK7-cyclin H determines individual patterns of transcription in infected cells.
Schütz, M., Cordsmeier, A., Wangen, C., Horn, A.H.C., Wyler, E., Ensser, A., Sticht, H. and Marschall, M.
International Journal of Molecular Sciences 24 (24): 17421. 13 December 2023

Post-COVID exercise intolerance is associated with capillary alterations and immune dysregulations in skeletal muscles.
Aschman, T., Wyler, E., Baum, O., Hentschel, A., Rust, R., Legler, F., Preusse, C., Meyer-Arndt, L., Büttnerova, I., Förster, A., Cengiz, D., Teixeira Alves, L.G., Schneider, J., Kedor, C., Bellmann-Strobl, J., Sanchin, A., Goebel, H.H., Landthaler, M., Corman, V., Roos, A., Heppner, F.L., Radbruch, H., Paul, F., Scheibenbogen, C., Dengler, N.F. and Stenzel, W.
Acta Neuropathologica Communications 11 (1): 193. 8 December 2023

Rat cytomegalovirus efficiently replicates in dendritic cells and induces changes in their transcriptional profile.
Madela-Mönchinger, J.C., Wolf, S.A., Wyler, E., Bauer, A., Mischke, M., Möller, L., Juranić Lisnić, V., Landthaler, M., Malyshkina, A. and Voigt, S.
Frontiers in Immunology 14 : 1192057. 23 November 2023

The matrix metalloproteinase ADAM10 supports hepatitis C virus entry and cell-to-cell spread via its sheddase activity.
Carriquí-Madroñal, B., Sheldon, J., Duven, M., Stegmann, C., Cirksena, K., Wyler, E., Zapatero-Belinchón, F.J., Vondran, F.W.R. and Gerold, G.
PLoS Pathogens 19 (11): e1011759. 15 November 2023

SLAM-Drop-seq reveals mRNA kinetic rates throughout the cell cycle.
Liu, H., Arsiè, R., Schwabe, D., Schilling, M., Minia, I., Alles, J., Boltengagen, A., Kocks, C., Falcke, M., Friedman, N., Landthaler, M. and Rajewsky, N.
Molecular Systems Biology 19 (10): e11427. 12 October 2023

Modelling viral encephalitis caused by herpes simplex virus 1 infection in cerebral organoids.
Rybak-Wolf, A., Wyler, E., Pentimalli, T.M., Legnini, I., Oliveras Martinez, A., Glažar, P., Loewa, A., Kim, S.J., Kaufer, B.B., Woehler, A., Landthaler, M. and Rajewsky, N.
Nature Microbiology 8 (7): 1252-1266. July 2023

The cytomegalovirus M35 protein directly binds to the interferon-β enhancer and modulates transcription of (Ifnb1) and other IRF3-driven genes.
Schwanke, H., Gonçalves Magalhães, V., Schmelz, S., Wyler, E., Hennig, T., Günther, T., Grundhoff, A., Dölken, L., Landthaler, M., van Ham, M., Jänsch, L., Büssow, K., van den Heuvel, J., Blankenfeldt, W., Friedel, C.C., Erhard, F. and Brinkmann, M.M.
Journal of Virology 97 (6): e0040023. 29 June 2023

Prävention von Infektionskrankheiten mit Abwasser [Prevention of Infectious Diseases with Wastewater].
Wyler, E. and Landthaler, M.
Arbeitsmedizin Sozialmedizin Umweltmedizin 58 (6): 381-384. June 2023

Global analysis of contact-dependent human-to-mouse intercellular mRNA and lncRNA transfer in cell culture.
Dasgupta, S., Dayagi, D.Y., Haimovich, G., Wyler, E., Olender, T., Singer, R.H., Landthaler, M. and Gerst, J.E.
eLife 12 : e83584. 30 May 2023

Live-attenuated vaccine sCPD9 elicits superior mucosal and systemic immunity to SARS-CoV-2 variants in hamsters.
Nouailles, G., Adler, J.M., Pennitz, P., Peidli, S., Teixeira Alves, L.G., Baumgardt, M., Bushe, J., Voss, A., Langenhagen, A., Langner, C., Martin Vidal, R., Pott, F., Kazmierski, J., Ebenig, A., Lange, M.V., Mühlebach, M.D., Goekeri, C., Simmons, S., Xing, N., Abdelgawad, A., Herwig, S., Cichon, G., Niemeyer, D., Drosten, C., Goffinet, C., Landthaler, M., Blüthgen, N., Wu, H., Witzenrath, M., Gruber, A.D., Praktiknjo, S.D., Osterrieder, N., Wyler, E., Kunec, D. and Trimpert, J.
Nature Microbiology 8 (5): 860-874. May 2023

Protocol to dissociate healthy and infected murine- and hamster-derived lung tissue for single-cell transcriptome analysis.
Pennitz, P., Goekeri, C., Trimpert, J., Wyler, E., Ebenig, A., Weissfuss, C., Mühlebach, M.D., Witzenrath, M. and Nouailles, G.
STAR Protocols 4 (1): 101957. 17 March 2023

SARS-CoV-2 infection dynamics revealed by wastewater sequencing analysis and deconvolution.
Schumann, V.F., de Castro Cuadrat, R.R., Wyler, E., Wurmus, R., Deter, A., Quedenau, C., Dohmen, J., Faxel, M., Borodina, T., Blume, A., Freimuth, J., Meixner, M., Grau, J.H., Liere, K., Hackenbeck, T., Zietzschmann, F., Gnirss, R., Böckelmann, U., Uyar, B., Franke, V., Barke, N., Altmüller, J., Rajewsky, N., Landthaler, M. and Akalin, A.
Science of the Total Environment 853 : 158931. 20 December 2022

State-of-the-art analytical methods of viral infections in human lung organoids.
Baumgardt, M., Hülsemann, M., Löwa, A., Fatykhova, D., Hoffmann, K., Kessler, M., Mieth, M., Hellwig, K., Frey, D., Langenhagen, A., Voss, A., Obermayer, B., Wyler, E., Dökel, S., Gruber, A.D., Tölch, U., Hippenstiel, S., Hocke, A.C. and Hönzke, K.
PLoS ONE 17 (12): e0276115. 20 December 2022

Human lungs show limited permissiveness for SARS-CoV-2 due to scarce ACE2 levels but virus-induced expansion of inflammatory macrophages.
Hönzke, K., Obermayer, B., Mache, C., Fathykova, D., Kessler, M., Dökel, S., Wyler, E., Baumgardt, M., Löwa, A., Hoffmann, K., Graff, P., Schulze, J., Mieth, M., Hellwig, K., Demir, Z., Biere, B., Brunotte, L., Mecate-Zambrano, A., Bushe, J., Dohmen, M., Hinze, C., Elezkurtaj, S., Tönnies, M., Bauer, T.T., Eggeling, S., Tran, H.L., Schneider, P., Neudecker, J., Rückert, J.C., Schmidt-Ott, K.M., Busch, J., Klauschen, F., Horst, D., Radbruch, H., Radke, J., Heppner, F., Corman, V.M., Niemeyer, D., Müller, M.A., Goffinet, C., Mothes, R., Pascual-Reguant, A., Hauser, A.E., Beule, D., Landthaler, M., Ludwig, S., Suttorp, N., Witzenrath, M., Gruber, A.D., Drosten, C., Sander, L.E., Wolff, T., Hippenstiel, S. and Hocke, A.C.
European Respiratory Journal 60 (6): 2102725. 1 December 2022

A critical period of translational control during brain development at codon resolution.
Harnett, D., Ambrozkiewicz, M.C., Zinnall, U., Rusanova, A., Borisova, E., Drescher, A.N., Couce-Iglesias, M., Villamil, G., Dannenberg, R., Imami, K., Münster-Wandowski, A., Fauler, B., Mielke, T., Selbach, M., Landthaler, M., Spahn, C.M.T., Tarabykin, V., Ohler, U. and Kraushar, M.L.
Nature Structural & Molecular Biology 29 (12): 1277-1290. December 2022

The trispecific DARPin ensovibep inhibits diverse SARS-CoV-2 variants.
Rothenberger, S., Hurdiss, D.L., Walser, M., Malvezzi, F., Mayor, J., Ryter, S., Moreno, H., Liechti, N., Bosshart, A., Iss, C., Calabro, V., Cornelius, A., Hospodarsch, T., Neculcea, A., Looser, T., Schlegel, A., Fontaine, S., Villemagne, D., Paladino, M., Schiegg, D., Mangold, S., Reichen, C., Radom, F., Kaufmann, Y., Schaible, D., Schlegel, I., Zitt, C., Sigrist, G., Straumann, M., Wolter, J., Comby, M., Sacarcelik, F., Drulyte, I., Lyoo, H., Wang, C., Li, W., Du, W., Binz, H.K., Herrup, R., Lusvarghi, S., Neerukonda, S.N., Vassell, R., Wang, W., Adler, J.M., Eschke, K., Nascimento, M., Abdelgawad, A., Gruber, A.D., Bushe, J., Kershaw, O., Knutson, C.G., Balavenkatraman, K.K., Ramanathan, K., Wyler, E., Teixeira Alves, L.G., Lewis, S., Watson, R., Haeuptle, M.A., Zürcher, A., Dawson, K.M., Steiner, D., Weiss, C.D., Amstutz, P., van Kuppeveld, F.J.M., Stumpp, M.T., Bosch, B.J., Engler, O. and Trimpert, J.
Nature Biotechnology 40 (12): 1845-1854. December 2022

Integrated genomic surveillance enables tracing of person-to-person SARS-CoV-2 transmission chains during community transmission and reveals extensive onward transmission of travel-imported infections, Germany, June to July 2021.
Houwaart, Torsten, Belhaj, S., Tawalbeh, E., Nagels, D., Fröhlich, Y., Finzer, P., Ciruela, P., Sabrià, A., Herrero, M., Andrés, C., Antón, A., Benmoumene, A., Asskali, D., Haidar, H., von Dahlen, J., Nicolai, J., Stiller, M., Blum, J., Lange, C., Adelmann, C., Schroer, B., Osmers, U., Grice, C., Kirfel, P.P., Jomaa, H., Strelow, D., Hülse, L., Pigulla, M., Kreuzer, P., Tyshaieva, A., Weber, J., Wienemann, T., Kohns Vasconcelos, M., Hoffmann, K., Lübke, N., Hauka, S., Andree, M., Scholz, C.J., Jazmati, N., Göbels, K., Zotz, R., Pfeffer, K., Timm, J., Ehlkes, L., Walker, A. and Dilthey, A.T.
Eurosurveillance 27 (43): 2101089. 27 October 2022

Highly conserved interaction profiles between clinically relevant mutants of the cytomegalovirus CDK-like kinase pUL97 and human cyclins: functional significance of cyclin H.
Schütz, M., Müller, R., Socher, E., Wangen, C., Full, F., Wyler, E., Wong, D., Scherer, M., Stamminger, T., Chou, S., Rawlinson, W.D., Hamilton, S.T., Sticht, H. and Marschall, M.
International Journal of Molecular Sciences 23 (19): 11814. 5 October 2022

A pulmonologist's guide to perform and analyse cross-species single lung cell transcriptomics.
Pennitz, P., Kirsten, H., Friedrich, V.D., Wyler, E., Goekeri, C., Obermayer, B., Heinz, G.A., Mashreghi, M.F., Büttner, M., Trimpert, J., Landthaler, M., Suttorp, N., Hocke, A.C., Hippenstiel, S., Tönnies, M., Scholz, M., Kuebler, W.M., Witzenrath, M., Hoenzke, K. and Nouailles, G.
European Respiratory Review 31 (165): 220056. 30 September 2022

Single-cell transcriptomics reveals common epithelial response patterns in human acute kidney injury.
Hinze, C., Kocks, C., Leiz, J., Karaiskos, N., Boltengagen, A., Cao, S., Skopnik, C.M., Klocke, J., Hardenberg, J.H., Stockmann, H., Gotthardt, I., Obermayer, B., Haghverdi, L., Wyler, E., Landthaler, M., Bachmann, S., Hocke, A.C., Corman, V., Busch, J., Schneider, W., Himmerkus, N., Bleich, M., Eckardt, K.U., Enghard, P., Rajewsky, N. and Schmidt-Ott, K.M.
Genome Medicine 14 (1): 103. 9 September 2022

Human alveolar progenitors generate dual lineage bronchioalveolar organoids.
Hoffmann, K., Obermayer, B., Hönzke, K., Fatykhova, D., Demir, Z., Löwa, A., Teixeira Alves, L.G., Wyler, E., Lopez-Rodriguez, E., Mieth, M., Baumgardt, M., Hoppe, J., Firsching, T.C., Tönnies, M., Bauer, T.T., Eggeling, S., Tran, H.L., Schneider, P., Neudecker, J., Rückert, J.C., Gruber, A.D., Ochs, M., Landthaler, M., Beule, D., Suttorp, N., Hippenstiel, S., Hocke, A.C. and Kessler, M.
Communications Biology 5 (1): 875. 25 August 2022

Vaccine-associated enhanced respiratory pathology in COVID-19 hamsters after T(H)2-biased immunization.
Ebenig, A., Muraleedharan, S., Kazmierski, J., Todt, D., Auste, A., Anzaghe, M., Gömer, A., Postmus, D., Gogesch, P., Niles, M., Plesker, R., Miskey, C., Gellhorn Serra, M., Breithaupt, A., Hörner, C., Kruip, C., Ehmann, R., Ivics, Z., Waibler, Z., Pfaender, S., Wyler, E., Landthaler, M., Kupke, A., Nouailles, G., Goffinet, C., Brown, R.J.P and Mühlebach, M.D.
Cell Reports 40 (7): 111214. 16 August 2022

De novo whole genome assembly of the Roborovski dwarf hamster (Phodopus roborovskii) genome, an animal model for severe/critical COVID-19.
Andreotti, S., Altmüller, J., Quedenau, C., Borodina, T., Nouailles, G., Teixeira Alves, L.G., Landthaler, M., Bieniara, M., Trimpert, J. and Wyler, E.
Genome Biology and Evolution 14 (7): evac100. July 2022

In vitro Kinase-to-Phosphosite database (iKiP-DB) predicts kinase activity in phosphoproteomic datasets.
Mari, T., Mösbauer, K., Wyler, E., Landthaler, M., Drosten, C. and Selbach, M.
Journal of Proteome Research 21 (6): 1575-1587. 3 June 2022

HDLBP binds ER-targeted mRNAs by multivalent interactions to promote protein synthesis of transmembrane and secreted proteins.
Zinnall, U., Milek, M., Minia, I., Vieira-Vieira, C.H., Müller, S., Mastrobuoni, G., Hazapis, O.G., Del Giudice, S., Schwefel, D., Bley, N., Voigt, F., Chao, J.A., Kempa, S., Hüttelmaier, S., Selbach, M. and Landthaler, M.
Nature Communications 13 (1): 2727. 18 May 2022

Key benefits of dexamethasone and antibody treatment in COVID-19 hamster models revealed by single cell transcriptomics.
Wyler, E., Adler, J.M., Eschke, K., Teixeira Alves, G., Peidli, S., Pott, F., Kazmierski, J., Michalick, L., Kershaw, O., Bushe, J., Andreotti, S., Pennitz, P., Abdelgawad, A., Postmus, D., Goffinet, C., Kreye, J., Reincke, S.M., Prüss, H., Blüthgen, N., Gruber, A.D., Kuebler, W.M., Witzenrath, M., Landthaler, M., Nouailles, G. and Trimpert, J.
Molecular Therapy 30 (5): 1952-1965. 4 May 2022

Characterization of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infection clusters based on integrated genomic surveillance, outbreak analysis and contact tracing in an urban setting.
Walker, A., Houwaart, T., Finzer, P., Ehlkes, L., Tyshaieva, A., Damagnez, M., Strelow, D., Duplessis, A., Nicolai, J., Wienemann, T., Tamayo, T., Kohns Vasconcelos, M., Hülse, L., Hoffmann, K., Lübke, N., Hauka, S., Andree, M., Däumer, M.P., Thielen, A., Kolbe-Busch, S., Göbels, K., Zotz, R., Pfeffer, K., Timm, J. and Dilthey, A.T.
Clinical Infectious Diseases 74 (6): 1039-1046. 15 March 2022

Complement activation induces excessive T cell cytotoxicity in severe COVID-19.
Georg, P., Astaburuaga-García, R., Bonaguro, L., Brumhard, S., Michalick, L., Lippert, L.J., Kostevc, T., Gäbel, C., Schneider, M., Streitz, M., Demichev, V., Gemünd, I., Barone, M., Tober-Lau, P., Helbig, E.T., Hillus, D., Petrov, L., Stein, J., Dey, H.P., Paclik, D., Iwert, C., Mülleder, M., Aulakh, S.K., Djudjaj, S., Bülow, R.D., Mei, H.E., Schulz, A.R., Thiel, A., Hippenstiel, S., Saliba, A.E., Eils, R., Lehmann, I., Mall, M.A., Stricker, S., Röhmel, J., Corman, V.M., Beule, D., Wyler, E., Landthaler, M., Obermayer, B., von Stillfried, S., Boor, P., Demir, M., Wesselmann, H., Suttorp, N., Uhrig, A., Müller-Redetzky, H., Nattermann, J., Kuebler, W.M., Meisel, C., Ralser, M., Schultze, J.L., Aschenbrenner, A.C., Thibeault, C., Kurth, F., Sander, L.E., Blüthgen, N. and Sawitzki, B.
Cell 185 (3): 493-512. 3 February 2022

Engineering, decoding and systems-level characterization of chimpanzee cytomegalovirus.
Phan, Q.V., Bogdanow, B., Wyler, E., Landthaler, M., Liu, F., Hagemeier, C. and Wiebusch, L.
PLoS Pathogens 18 (1): e1010193. 4 January 2022

SARS-CoV-2 infection triggers profibrotic macrophage responses and lung fibrosis.
Wendisch, D., Dietrich, O., Mari, T., von Stillfried, S., Ibarra, I.L., Mittermaier, M., Mache, C., Chua, R.L., Knoll, R., Timm, S., Brumhard, S., Krammer, T., Zauber, H., Hiller, A.L., Pascual-Reguant, A., Mothes, R., Bülow, R.D., Schulze, J., Leipold, A.M., Djudjaj, S., Erhard, F., Geffers, R., Pott, F., Kazmierski, J., Radke, J., Pergantis, P., Baßler, K., Conrad, C., Aschenbrenner, A.C., Sawitzki, B., Landthaler, M., Wyler, E., Horst, D., Hippenstiel, S., Hocke, A., Heppner, F.L., Uhrig, A., Garcia, C., Machleidt, F., Herold, S., Elezkurtaj, S., Thibeault, C., Witzenrath, M., Cochain, C., Suttorp, N., Drosten, C., Goffinet, C., Kurth, F., Schultze, J.L., Radbruch, H., Ochs, M., Eils, R., Müller-Redetzky, H., Hauser, A.E., Luecken, M.D., Theis, F.J., Conrad, C., Wolff, T., Boor, P., Selbach, M., Saliba, A.E. and Sander, L.E.
Cell 184 (26): 6243-6261. 22 December 2021

Single-cell analysis of arthritogenic alphavirus-infected human synovial fibroblasts links low abundance of viral RNA to induction of innate immunity and arthralgia-associated gene expression.
Pott, F., Postmus, D., Brown, R.J.P., Wyler, E., Neumann, E., Landthaler, M. and Goffinet, C.
Emerging Microbes & Infections 10 (1): 2151-2168. 16 November 2021

Virus-induced senescence is driver and therapeutic target in COVID-19.
Lee, S., Yu, Y., Trimpert, J., Benthani, F., Mairhofer, M., Richter-Pechanska, P., Wyler, E., Belenki, D., Kaltenbrunner, S., Pammer, M., Kausche, L., Firsching, T.C., Dietert, K., Schotsaert, M., Martínez-Romero, C., Singh, G., Kunz, S., Niemeyer, D., Ghanem, R., Salzer, H.J.F., Paar, C., Mülleder, M., Uccellini, M., Michaelis, E.G., Khan, A., Lau, A., Schönlein, M., Habringer, A., Tomasits, J., Adler, J.M., Kimeswenger, S., Gruber, A.D., Hoetzenecker, W., Steinkellner, H., Purfuerst, B., Motz, R., Di Pierro, F., Lamprecht, B., Osterrieder, N., Landthaler, M., Drosten, C., García-Sastre, A., Langer, R., Ralser, M., Eils, R., Reimann, M., Fan, D.N.Y. and Schmitt, C.A.
Nature 599 : 283-289. 11 November 2021

Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19.
Krämer, B., Knoll, R., Bonaguro, L., ToVinh, M., Raabe, J., Astaburuaga-García, R., Schulte-Schrepping, J., Kaiser, K.M., Rieke, G.J., Bischoff, J., Monin, M.B., Hoffmeister, C., Schlabe, S., De Domenico, E., Reusch, N., Händler, K., Reynolds, G., Blüthgen, N., Hack, G., Finnemann, C., Nischalke, H.D., Strassburg, C.P., Stephenson, E., Su, Y., Gardner, L., Yuan, D., Chen, D., Goldman, J., Rosenstiel, P., Schmidt, S.V., Latz, E., Hrusovsky, K., Ball, A.J., Johnson, J.M., Koenig, P.A., Schmidt, F.I., Haniffa, M., Heath, J.R., Kümmerer, B.M., Keitel, V., Jensen, B., Stubbemann, P., Kurth, F., Sander, L.E., Sawitzki, B., Aschenbrenner, A.C., Schultze, J.L. and Nattermann, J.
Immunity 54 (11): 2650-2669. 9 November 2021

Mitogen-activated protein kinase activity drives cell trajectories in colorectal cancer.
Uhlitz, F., Bischoff, P., Peidli, S., Sieber, A., Trinks, A., Lüthen, M., Obermayer, B., Blanc, E., Ruchiy, Y., Sell, T., Mamlouk, S., Arsie, R., Wei, T.T., Klotz-Noack, K., Schwarz, R.F., Sawitzki, B., Kamphues, C., Beule, D., Landthaler, M., Sers, C., Horst, D., Blüthgen, N. and Morkel, M.
EMBO Molecular Medicine 13 (10): e14123. 7 October 2021

Integrated multi-omics analysis of RB-loss identifies widespread cellular programming and synthetic weaknesses.
Rajasekaran, S., Siddiqui, J., Rakijas, J., Nicolay, B., Lin, C., Khan, E., Patel, R., Morris, R., Wyler, E., Boukhali, M., Balasubramanyam, J., Ranjith Kumar, R., Van Rechem, C., Vogel, C., Elchuri, S.V., Landthaler, M., Obermayer, B., Haas, W., Dyson, N. and Miles, W.
Communications Biology 4 (1): 977. 17 August 2021

Temporal omics analysis in Syrian hamsters unravel cellular effector responses to moderate COVID-19.
Nouailles, G., Wyler, E., Pennitz, P., Postmus, D., Vladimirova, D., Kazmierski, J., Pott, F., Dietert, K., Muelleder, M., Farztdinov, V., Obermayer, B., Wienhold, S.M., Andreotti, S., Hoefler, T., Sawitzki, B., Drosten, C., Sander, L.E., Suttorp, N., Ralser, M., Beule, D., Gruber, A.D., Goffinet, C., Landthaler, M., Trimpert, J. and Witzenrath, M.
Nature Communications 12 (1): 4869. 11 August 2021

SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals.
Gassen, N.C., Papies, J., Bajaj, T., Emanuel, J., Dethloff, F., Chua, R.L., Trimpert, J., Heinemann, N., Niemeyer, C., Weege, F., Hönzke, K., Aschman, T., Heinz, D.E., Weckmann, K., Ebert, T., Zellner, A., Lennarz, M., Wyler, E., Schroeder, S., Richter, A., Niemeyer, D., Hoffmann, K., Meyer, T.F., Heppner, F.L., Corman, V.M., Landthaler, M., Hocke, A.C., Morkel, M., Osterrieder, N., Conrad, C., Eils, R., Radbruch, H., Giavalisco, P., Drosten, C. and Müller, M.A.
Nature Communications 12 (1): 3818. 21 June 2021

Swarm Learning for decentralized and confidential clinical machine learning.
Warnat-Herresthal, S., Schultze, H., Shastry, K.L., Manamohan, S., Mukherjee, S., Garg, V., Sarveswara, R., Händler, K., Pickkers, P., Aziz, N.A., Ktena, S., Tran, F., Bitzer, M., Ossowski, S., Casadei, N., Herr, C., Petersheim, D., Behrends, U., Kern, F., Fehlmann, T., Schommers, P., Lehmann, C., Augustin, M., Rybniker, J., Altmüller, J., Mishra, N., Bernardes, J.P., Krämer, B., Bonaguro, L., Schulte-Schrepping, J., De Domenico, E., Siever, C., Kraut, M., Desai, M., Monnet, B., Saridaki, M., Siegel, C.M., Drews, A., Nuesch-Germano, M., Theis, H., Heyckendorf, J., Schreiber, S., Kim-Hellmuth, S., Nattermann, J., Skowasch, D., Kurth, I., Keller, A., Bals, R., Nürnberg, P., Rieß, O., Rosenstiel, P., Netea, M.G., Theis, F., Mukherjee, S., Backes, M., Aschenbrenner, A.C., Ulas, T., Breteler, M.M.B., Giamarellos-Bourboulis, E.J., Kox, M., Becker, M., Cheran, S., Woodacre, M.S., Goh, E.L. and Schultze, J.L.
Nature 594 (7862): 265-270. 10 June 2021

Spatio-temporal mRNA tracking in the early zebrafish embryo.
Holler, K., Neuschulz, A., Drewe-Boß, P., Mintcheva, J., Spanjaard, B., Arsiè, R., Ohler, U., Landthaler, M. and Junker, J.P.
Nature Communications 12 : 3358. 7 June 2021

SARS-CoV-2 infection paralyzes cytotoxic and metabolic functions of the immune cells.
Singh, Y., Trautwein, C., Fendel, R., Krickeberg, N., Berezhnoy, G., Bissinger, R., Ossowski, S., Salker, M.S., Casadei, N. and Riess, O.
Heliyon 7 (6): e07147. June 2021

The zinc finger antiviral protein ZAP restricts human cytomegalovirus and selectively binds and destabilizes viral UL4/UL5 transcripts.
Gonzalez-Perez, A.C., Stempel, M., Wyler, E., Urban, C., Piras, A., Hennig, T., Ganskih, S., Wei, Y., Heim, A., Landthaler, M., Pichlmair, A., Dölken, L., Munschauer, M., Erhard, F. and Brinkmann, M.M.
mBio 12 (3): e02683-20. 4 May 2021

DDX3 depletion represses translation of mRNAs with complex 5' UTRs.
Calviello, L., Venkataramanan, S., Rogowski, K.J., Wyler, E., Wilkins, K., Tejura, M., Thai, B., Krol, J., Filipowicz, W., Landthaler, M. and Floor, S.N.
Nucleic Acids Research 49 (9): 5336-5350. May 2021

Transcriptomic profiling of SARS-CoV-2 infected human cell lines identifies HSP90 as target for COVID-19 therapy.
Wyler, E., Mösbauer, K., Franke, V., Diag, A., Gottula, L.T., Arsiè, R., Klironomos, F., Koppstein, D., Hönzke, K., Ayoub, S., Buccitelli, C., Hoffmann, K., Richter, A., Legnini, I., Ivanov, A., Mari, T., Del Giudice, S., Papies, J., Praktiknjo, S., Meyer, T.F., Müller, M.A., Niemeyer, D., Hocke, A., Selbach, M., Akalin, A., Rajewsky, N., Drosten, C. and Landthaler, M.
iScience 24 (3): 102151. 19 March 2021

Protein synthesis in the developing neocortex at near-atomic resolution reveals Ebp1-mediated neuronal proteostasis at the 60S tunnel exit.
Kraushar, M.L., Krupp, F., Harnett, D., Turko, P., Ambrozkiewicz, M.C., Sprink, T., Imami, K., Günnigmann, M., Zinnall, U., Vieira-Vieira, C.H., Schaub, T., Münster-Wandowski, A., Bürger, J., Borisova, E., Yamamoto, H., Rasin, M.R., Ohler, U., Beule, D., Mielke, T., Tarabykin, V., Landthaler, M., Kramer, G., Vida, I., Selbach, M. and Spahn, C.M.T.
Molecular Cell 81 (2): 304-322. 21 January 2021

CRNKL1 is a highly selective regulator of intron-retaining HIV-1 and cellular mRNAs.
Xiao, H., Wyler, E., Milek, M., Grewe, B., Kirchner, P., Ekici, A., Silva, A.B.O.V., Jungnickl, D., Full, F., Thomas, M., Landthaler, M., Ensser, A. and Überla, K.
mBio 12 (1): e02525-20. 19 January 2021

Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients.
Aschenbrenner, A.C., Mouktaroudi, M., Krämer, B., Oestreich, M., Antonakos, N., Nuesch-Germano, M., Gkizeli, K., Bonaguro, L., Reusch, N., Baßler, K., Saridaki, M., Knoll, R., Pecht, T., Kapellos, T.S., Doulou, S., Kröger, C., Herbert, M., Holsten, L., Horne, A., Gemünd, I.D., Rovina, N., Agrawal, S., Dahm, K., van Uelft, M., Drews, A., Lenkeit, L., Bruse, N., Gerretsen, J., Gierlich, J., Becker, M., Händler, K., Kraut, M., Theis, H., Mengiste, S., Domenico, E., Schulte-Schrepping, J., Seep, L., Raabe, J., Hoffmeister, C., ToVinh, M., Keitel, V., Rieke, G., Talevi, V., Skowasch, D., Aziz, N.A., Pickkers, P., van de Veerdonk, F.L., Netea, M.G., Schultze, J.L., Kox, M., Breteler, M.M.B., Nattermann, J., Koutsoukou, A., Giamarellos-Bourboulis, E.J. and Ulas, T.
Genome Medicine 13 (1): 7. 13 January 2021

Longitudinal multi-omics analyses identify responses of megakaryocytes, erythroid cells, and plasmablasts as hallmarks of severe COVID-19.
Bernardes, J.P., Mishra, N., Tran, F., Bahmer, T., Best, L., Blase, J.I., Bordoni, D., Franzenburg, J., Geisen, U., Josephs-Spaulding, J., Köhler, P., Künstner, A., Rosati, E., Aschenbrenner, A.C., Bacher, P., Baran, N., Boysen, T., Brandt, B., Bruse, N., Dörr, J., Dräger, A., Elke, G., Ellinghaus, D., Fischer, J., Forster, M., Franke, A., Franzenburg, S., Frey, N., Friedrichs, A., Fuß, J., Glück, A., Hamm, J., Hinrichsen, F., Hoeppner, M.P., Imm, S., Junker, R., Kaiser, S., Kan, Y.H., Knoll, R., Lange, C., Laue, G., Lier, C., Lindner, M., Marinos, G., Markewitz, R., Nattermann, J., Noth, R., Pickkers, P., Rabe, K.F., Renz, A., Röcken, C., Rupp, J., Schaffarzyk, A., Scheffold, A., Schulte-Schrepping, J., Schunk, D., Skowasch, D., Ulas, T., Wandinger, K.P., Wittig, M., Zimmermann, J., Busch, H., Hoyer, B.F., Kaleta, C., Heyckendorf, J., Kox, M., Rybniker, J., Schreiber, S., Schultze, J.L. and Rosenstiel, P.
Immunity 53 (6): 1296-1314. 15 December 2020

4EHP and GIGYF1/2 mediate translation-coupled messenger RNA decay.
Weber, R., Chung, M.Y., Keskeny, C., Zinnall, U., Landthaler, M., Valkov, E., Izaurralde, E. and Igreja, C.
Cell Reports 33 (2): 108262. 13 October 2020

Severe COVID-19 is marked by a dysregulated myeloid cell compartment.
Schulte-Schrepping, J., Reusch, N., Paclik, D., Baßler, K., Schlickeiser, S., Zhang, B., Krämer, B., Krammer, T., Brumhard, S., Bonaguro, L., De Domenico, E., Wendisch, Da., Grasshoff, M., Kapellos, T.S., Beckstette, M., Pecht, T., Saglam, A., Dietrich, O., Mei, H.E., Schulz, A.R., Conrad, C., Kunkel, D., Vafadarnejad, E., Xu, C.J., Horne, A., Herbert, M., Drews, A., Thibeault, C., Pfeiffer, M., Hippenstiel, S., Hocke, A., Müller-Redetzky, H., Heim, K.M., Machleidt, F., Uhrig, A., Bosquillon de Jarcy, L., Jürgens, L., Stegemann, M., Glösenkamp, C.R., Volk, H.D., Goffinet, C., Landthaler, M., Wyler, E., Georg, P., Schneider, M., Dang-Heine, C., Neuwinger, N., Kappert, K., Tauber, R., Corman, V., Raabe, J., Kaiser, K.M., Vinh, M.T., Rieke, G., Meisel, C., Ulas, T., Becker, M., Geffers, R., Witzenrath, M., Drosten, C., Suttorp, N., von Kalle, C., Kurth, F., Händler, K., Schultze, J.L., Aschenbrenner, A.C., Li, Y., Nattermann, J., Sawitzki, B., Saliba, A.E. and Sander, L.E.
Cell 182 (6): 1419-1440. 17 September 2020

Loss of m(1)acp(3)Ψ ribosomal RNA modification is a major feature of cancer.
Babaian, A., Rothe, K., Girodat, D., Minia, I., Djondovic, S., Milek, M., Spencer Miko, S.E., Wieden, H.J., Landthaler, M., Morin, G.B. and Mager, D.L.
Cell Reports 31 (5): 107611. 5 May 2020

Mechanism of virus attenuation by codon pair deoptimization.
Groenke, N., Trimpert, J., Merz, S., Conradie, A.M., Wyler, E., Zhang, H., Hazapis, O.G., Rausch, S., Landthaler, M., Osterrieder, N. and Kunec, D.
Cell Reports 31 (4): 107586. 28 April 2020

Integrative functional genomics decodes herpes simplex virus 1.
Whisnant, A.W., Jürges, C.S., Hennig, T., Wyler, E., Prusty, B., Rutkowski, A.J., L'hernault, A., Djakovic, L., Göbel, M., Döring, K., Menegatti, J., Antrobus, R., Matheson, N.J., Künzig, F.W.H., Mastrobuoni, G., Bielow, C., Kempa, S., Liang, C., Dandekar, T., Zimmer, R., Landthaler, M., Grässer, F., Lehner, P.J., Friedel, C.C., Erhard, F. and Dölken, L.
Nature Communications 11 (1): 2038. 27 April 2020

The human ZC3H3 and RBM26/27 proteins are critical for PAXT-mediated nuclear RNA decay.
Silla, T., Schmid, M., Dou, Y., Garland, W., Milek, M., Imami, K., Johnsen, D., Polak, P., Andersen, J.S., Selbach, M., Landthaler, M. and Jensen, T.
Nucleic Acids Research 48 (5): 2518-2530. 18 March 2020

Distinct genetic alterations and luminal molecular subtype in nested variant of urothelial carcinoma (NVUC).
Weyerer, V., Weisser, R., Moskalev, E.A., Haller, F., Stoehr, R., Eckstein, M., Zinnall, U., Gaisa, N.T., Compérat, E., Perren, A., Keck, B., Allory, Y., Kristiansen, G., Wullich, B., Agaimy, A., Hartmann, A. and Bertz, S.
Histopathology 75 (6): 865-875. December 2019

Context-specific regulation of cell survival by a miRNA-controlled BIM rheostat.
Labi, V., Peng, S., Klironomos, F., Munschauer, M., Kastelic, N., Chakraborty, T., Schoeler, K., Derudder, E., Martella, M., Mastrobuoni, G., Hernandez-Miranda, L.R., Lahmann, I., Kocks, C., Birchmeier, C., Kempa, S., Quintanilla-Martinez de Fend, L., Landthaler, M., Rajewsky, N. and Rajewsky, K.
Genes & Development 33 : 23-24. 7 November 2019

Codon bias confers stability to human mRNAs.
Hia, F., Yang, S.F., Shichino, Y., Yoshinaga, M., Murakawa, Y., Vandenbon, A., Fukao, A., Fujiwara, T., Landthaler, M., Natsume, T., Adachi, S., Iwasaki, S. and Takeuchi, O.
EMBO Reports 20 (11): e48220. 5 November 2019

Single-cell RNA-sequencing of herpes simplex virus 1-infected cells connects NRF2 activation to an antiviral program.
Wyler, E., Franke, V., Menegatti, J., Kocks, C., Boltengagen, A., Praktiknjo, S., Walch-Rückheim, B., Bosse, J., Rajewsky, N., Grässer, F., Akalin, A. and Landthaler, M.
Nature Communications 10 (1): 4878. 25 October 2019

The translational landscape of the human heart.
van Heesch, S., Witte, F., Schneider-Lunitz, V., Schulz, J.F., Adami, E., Faber, A., Kirchner, M., Maatz, H., Blachut, S., Sandmann, C.L., Kanda, M., Worth, C.L., Schafer, S., Calviello, L., Merriott, R., Patone, G., Hummel, O., Wyler, E., Obermayer, B., Mücke, M., Lindberg, E.L., Trnka, F., Memczak, S., Schilling, M., Felkin, L.E., Barton, P.J.R., Quaife, N.M., Vanezis, K., Diecke, S., Mukai, M., Mah, N., Oh, S.J., Kurtz, A., Schramm, C., Schwinge, D., Sebode, M., Harakalova, M., Asselbergs, F.W., Vink, A., de Weger, R.A., Viswanathan, S., Widjaja, A.A., Gärtner-Rommel, A., Milting, H., Dos Remedios, C., Knosalla, C., Mertins, P., Landthaler, M., Vingron, M., Linke, W.A., Seidman, J.G., Seidman, C.E., Rajewsky, N., Ohler, U., Cook, S.A. and Hubner, N.
Cell 178 (1): 242-260. 27 June 2019

Mutant FUS and ELAVL4 (HuD) aberrant crosstalk in amyotrophic lateral sclerosis.
De Santis, R., Alfano, V., de Turris, V., Colantoni, A., Santini, L., Garone, M.G., Antonacci, G., Peruzzi, G., Sudria-Lopez, E., Wyler, E., Anink, J.J., Aronica, E., Landthaler, M., Pasterkamp, R.J., Bozzoni, I. and Rosa, A.
Cell Reports 27 (13): 3818-3831. 25 June 2019

The influence of capsaicin on the integrity of microvascular endothelial cell monolayers.
Kaiser, M., Burek, M., Britz, S., Lankamp, F., Ketelhut, S., Kemper, B., Förster, C., Gorzelanny, C. and Goycoolea, F.M.
International Journal of Molecular Sciences 20 (1): 122. 30 December 2018

New insights into the cellular temporal response to proteostatic stress.
Rendleman, J., Cheng, Z., Maity, S., Kastelic, N., Munschauer, M., Allgoewer, K., Teo, G., Zhang, Y.B.M., Lei, A., Parker, B., Landthaler, M., Freeberg, L., Kuersten, S., Choi, H. and Vogel, C.
eLife 7 : e39054. 12 October 2018

Phosphorylation of the ribosomal protein RPL12/uL11 affects translation during mitosis.
Imami, K., Milek, M., Bogdanow, B., Yasuda, T., Kastelic, N., Zauber, H., Ishihama, Y., Landthaler, M. and Selbach, M.
Molecular Cell 72 (1): 84-98. 4 October 2018

Micropapillary urothelial carcinoma: evaluation of HER2 status and immunohistochemical characterization of the molecular subtype.
Zinnall, U., Weyerer, V., Compérat, E., Camparo, P., Gaisa, N.T., Knuechel-Clarke, R., Perren, A., Lugli, A., Toma, M., Baretton, G., Kristiansen, G., Wirtz, R.M., Cheng, L., Wullich, B., Stoehr, R., Hartmann, A. and Bertz, S.
Human Pathology 80 : 55-64. October 2018

Expanding the map of protein-RNA interaction sites via cell fusion followed by PAR-CLIP.
Hinze, F., Drewe-Boss, P., Milek, M., Ohler, U., Landthaler, M. and Gotthardt, M.
RNA Biology 15 (3): 359-368. 4 March 2018

Systematic detection of poly(A)(+) RNA-interacting proteins and their differential binding.
Milek, M. and Landthaler, M.
Methods in Molecular Biology 1649 : 405-417. 2018

Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection.
Wyler, E., Menegatti, J., Franke, V., Kocks, C., Boltengagen, A., Hennig, T., Theil, K., Rutkowski, A., Ferrai, C., Baer, L., Kermas, L., Friedel, C., Rajewsky, N., Akalin, A., Dölken, L., Grässer, F. and Landthaler, M.
Genome Biology 18 (1): 209. 31 October 2017

mRNA interactome capture in mammalian cells.
Kastelic, N. and Landthaler, M.
Methods 126 : 38-43. 15 August 2017

Rattus norvegicus BN/SHR liver and heart left ventricle ribosomal RNA depleted directional RNA sequencing.
Wyler, E., van Heesch, S., Adami, E., Hubner, N. and Landthaler, M.
BMC Research Notes 10 (1): 395. 11 August 2017

DDX54 regulates transcriptome dynamics during DNA damage response.
Milek, M., Imami, K., Mukherjee, N., De Bortoli, F., Zinnall, U., Hazapis, O., Trahan, C., Oeffinger, M., Heyd, F., Ohler, U., Selbach, M. and Landthaler, M.
Genome Research 27 (8): 1344-1359. August 2017

An immediate-late gene expression module decodes ERK signal duration.
Uhlitz, F., Sieber, A., Wyler, E., Fritsche-Guenther, R., Meisig, J., Landthaler, M., Klinger, B. and Blüthgen, N.
Molecular Systems Biology 13 (5): 928. 3 May 2017

Translation of circRNAs.
Pamudurti, N.R., Bartok, O., Jens, M., Ashwal-Fluss, R., Stottmeister, C., Ruhe, L., Hanan, M., Wyler, E., Perez-Hernandez, D., Ramberger, E., Shenzis, S., Samson, M., Dittmar, G., Landthaler, M., Chekulaeva, M., Rajewsky, N. and Kadener, S.
Molecular Cell 66 (1): 9-21. 6 April 2017

Transcriptome-wide identification of RNA-binding protein binding sites using photoactivatable-ribonucleoside-enhanced crosslinking immunoprecipitation (PAR-CLIP).
Maatz, H., Kolinski, M., Hubner, N. and Landthaler, M.
Current Protocols in Molecular Biology 118 : 27.6.1-27.6.19. 3 April 2017

JACUSA: site-specific identification of RNA editing events from replicate sequencing data.
Piechotta, M., Wyler, E., Ohler, U., Landthaler, M. and Dieterich, C.
BMC Bioinformatics 18 (1): 7. 3 January 2017

The Lupus autoantigen La prevents Mis-channeling of tRNA fragments into the human microRNA pathway.
Hasler, D., Lehmann, G., Murakawa, Y., Klironomos, F., Jakob, L., Grässer, F.A., Rajewsky, N., Landthaler, M. and Meister, G.
Molecular Cell 63 (1): 110-124. 7 July 2016

The mRNA-bound proteome of the early fly embryo.
Wessels, H.H., Imami, K., Baltz, A.G., Kolinski, M., Beldovskaya, A., Selbach, M., Small, S., Ohler, U. and Landthaler, M.
Genome Research 26 (7): 1000-1009. July 2016

TERT core promotor mutations in early-onset bladder cancer.
Giedl, J., Rogler, A., Wild, A., Riener, M.O., Filbeck, T., Burger, M., Ruemmele, P., Hurst, C., Knowles, M., Hartmann, A., Zinnall, U. and Stoehr, R.
Journal of Cancer 7 (8): 915-920. 7 May 2016

Detecting actively translated open reading frames in ribosome profiling data.
Calviello, L., Mukherjee, N., Wyler, E., Zauber, H., Hirsekorn, A., Selbach, M., Landthaler, M., Obermayer, B. and Ohler, U.
Nature Methods 13 (2): 165-170. February 2016

Comprehensive protein interactome analysis of a key RNA helicase: detection of novel stress granule proteins.
Bish, R., Cuevas-Polo, N., Cheng, Z., Hambardzumyan, D., Munschauer, M., Landthaler, M. and Vogel, C.
Biomolecules 5 (3): 1441-1466. 15 July 2015

RC3H1 post-transcriptionally regulates A20 mRNA and modulates the activity of the IKK/NF-κB pathway.
Murakawa, Y., Hinz, M., Mothes, J., Schuetz, A., Uhl, M., Wyler, E., Yasuda, T., Mastrobuoni, G., Friedel, C.C., Dölken, L., Kempa, S., Schmidt-Supprian, M., Blüthgen, N., Backofen, R., Heinemann, U., Wolf, J., Scheidereit, C. and Landthaler, M.
Nature Communications 6 : 7367. 14 July 2015

LARP4B is an AU-rich sequence associated factor that promotes mRNA accumulation and translation.
Küspert, M., Murakawa, Y., Schäffler, K., Vanselow, J.T., Wolf, E., Juranek, S., Schlosser, A., Landthaler, M. and Fischer, U.
RNA 21 (7): 1294-1305. July 2015

Regnase-1 and roquin regulate a common element in inflammatory mRNAs by spatiotemporally distinct mechanisms.
Mino, T., Murakawa, Y., Fukao, A., Vandenbon, A., Wessels, H.H., Ori, D., Uehata, T., Tartey, S., Akira, S., Suzuki, Y., Vinuesa, C.G., Ohler, U., Standley, D.M., Landthaler, M., Fujiwara, T. and Takeuchi, O.
Cell 161 (5): 1058-1073. 21 May 2015

Quantitative interaction proteomics of neurodegenerative disease proteins.
Hosp, F., Vossfeldt, H., Heinig, M., Vasiljevic, D., Arumughan, A., Wyler, E., Landthaler, M., Hubner, N., Wanker, E.E., Lannfelt, L., Ingelsson, M., Lalowski, M., Voigt, A. and Selbach, M.
Cell Reports 11 (7): 1134-1146. 19 May 2015

DoRiNA 2.0-upgrading the doRiNA database of RNA interactions in post-transcriptional regulation.
Blin, K., Dieterich, C., Wurmus, R., Rajewsky, N., Landthaler, M. and Akalin, A.
Nucleic Acids Research 43 (Database issue): D160-D167. 28 January 2015

Analysis of intron sequences reveals hallmarks of circular RNA biogenesis in animals.
Ivanov, A., Memczak, S., Wyler, E., Torti, F., Porath, H.T., Orejuela, M.R., Piechotta, M., Levanon, E.Y., Landthaler, M., Dieterich, C. and Rajewsky, N.
Cell Reports 10 (2): 170-177. 13 January 2015

Roquin binding to target mRNAs involves a winged helix-turn-helix motif.
Schuetz, A., Murakawa, Y., Rosenbaum, E., Landthaler, M. and Heinemann, U.
Nature Communications 5 : 5701. 11 December 2014

A variety of dicer substrates in human and C. elegans.
Rybak-Wolf, A., Jens, M., Murakawa, Y., Herzog, M., Landthaler, M. and Rajewsky, N.
Cell 159 (5): 1153-1167. 20 November 2014

RNA-binding protein RBM20 represses splicing to orchestrate cardiac pre-mRNA processing.
Maatz, H., Jens, M., Liss, M., Schafer, S., Heinig, M., Kirchner, M., Adami, E., Rintisch, C., Dauksaite, V., Radke, M.H., Selbach, M., Barton, P.J.R., Cook, S.A., Rajewsky, N., Gotthardt, M., Landthaler, M. and Hubner, N.
Journal of Clinical Investigation 124 (8): 3419-3430. 1 August 2014

SecA defects are accompanied by dysregulation of MukB, DNA gyrase, chromosome partitioning and DNA superhelicity in Escherichia coli.
Adachi, S., Murakawa, Y. and Hiraga, S.
Microbiology 160 (Pt 8): 1648-1658. August 2014

MOV10 is a 5' to 3' RNA helicase contributing to UPF1 mRNA target degradation by translocation along 3' UTRs.
Gregersen, L.H., Schueler, M., Munschauer, M., Mastrobuoni, G., Chen, W., Kempa, S., Dieterich, C. and Landthaler, M.
Molecular Cell 54 (4): 573-585. 22 May 2014

High-resolution profiling of protein occupancy on polyadenylated RNA transcripts.
Munschauer, M., Schueler, M., Dieterich, C. and Landthaler, M.
Methods 65 (3): 302-309. February 2014

Differential protein occupancy profiling of the mRNA transcriptome.
Schueler, M., Munschauer, M., Gregersen, L.H., Finzel, A., Loewer, A., Chen, W., Landthaler, M. and Dieterich, C.
Genome Biology 15 (1): R15. 13 January 2014

Integrative analysis revealed the molecular mechanism underlying RBM10-mediated splicing regulation.
Wang, Y., Gogol-Döring, A., Hu, H., Fröhler, S., Ma, Y., Jens, M., Maaskola, J., Murakawa, Y., Quedenau, C., Landthaler, M., Kalscheuer, V., Wieczorek, D., Wang, Y., Hu, Y. and Chen, W.
EMBO Molecular Medicine 5 (9): 1431-1442. September 2013

Identification of LIN28B-bound mRNAs reveals features of target recognition and regulation.
Graf, R., Munschauer, M., Mastrobuoni, G., Mayr, F., Heinemann, U., Kempa, S., Rajewsky, N. and Landthaler, M.
RNA Biology 10 (7): 1146-1159. 1 July 2013

An arrayed RNA interference genome-wide screen identifies candidate genes involved in the MicroRNA 21 biogenesis pathway.
Shum, D., Bhinder, B., Ramirez, C.N., Radu, C., Calder, P.A., Beauchamp, L., Farazi, T., Landthaler, M., Tuschl, T., Magdaleno, S. and Djaballah, H.
Assay and Drug Development Technologies 11 (3): 191-205. April 2013

Circular RNAs are a large class of animal RNAs with regulatory potency.
Memczak, S., Jens, M., Elefsinioti, A., Torti, F., Krueger, J., Rybak, A., Maier, L., Mackowiak, S.D., Gregersen, L.H., Munschauer, M., Loewer, A., Ziebold, U., Landthaler, M., Kocks, C., le Noble, F. and Rajewsky, N.
Nature 495 (7441): 333-338. 21 March 2013

Cold-induced RNA-binding proteins regulate circadian gene expression by controlling alternative polyadenylation.
Liu, Y., Hu, W., Murakawa, Y., Yin, J., Wang, G., Landthaler, M. and Yan, J.
Scientific Reports 3 : 2054. 2013

An image-based biosensor assay strategy to screen for modulators of the microRNA 21 biogenesis pathway.
Shum, D., Bhinder, B., Radu, C., Farazi, T., Landthaler, M., Tuschl, T., Calder, P., Ramirez, C.N. and Djaballah, H.
Combinatorial Chemistry & High Throughput Screening 15 (7): 529-541. August 2012

MicroRNA-143 down-regulates Hexokinase 2 in colon cancer cells.
Gregersen, L.H., Jacobsen, A., Frankel, L.B., Wen, J., Krogh, A. and Lund, A.H.
BMC Cancer 12 : 232. 12 June 2012

The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts.
Baltz, A.G., Munschauer, M., Schwanhaeusser, B., Vasile, A., Murakawa, Y., Schueler, M., Youngs, N., Penfold-Brown, D., Drew, K., Milek, M., Wyler, E., Bonneau, R., Selbach, M., Dieterich, C. and Landthaler, M.
Molecular Cell 46 (5): 674-690. 8 June 2012

doRiNA: a database of RNA interactions in post-transcriptional regulation.
Anders, G., Mackowiak, S.D., Jens, M., Maaskola, J., Kuntzagk, A., Rajewsky, N., Landthaler, M. and Dieterich, C.
Nucleic Acids Research 40 (1): D180-D186. January 2012

Transcriptome-wide analysis of regulatory interactions of the RNA-binding protein HuR.
Lebedeva, S., Jens, M., Theil, K., Schwanhaeusser, B., Selbach, M., Landthaler, M. and Rajewsky, N.
Molecular Cell 43 (3): 340-352. 5 August 2011

FOXO1 is an essential regulator of pluripotency in human embryonic stem cells.
Zhang, X., Yalcin, S., Lee, D.F., Yeh, T.Y., Lee, S.M., Su, J., Mungamuri, S.K., Rimmele, P., Kennedy, M., Sellers, R., Landthaler, M., Tuschl, T., Chi, N.W., Lemischka, I., Keller, G. and Ghaffari, S.
Nature Cell Biology 13 (9): 1092-1099. 31 July 2011

Fluorescence cross-correlation spectroscopy reveals mechanistic insights into the effect of 2'-O-methyl modified siRNAs in living cells.
Ohrt, T., Staroske, W., Muetze, J., Crell, K., Landthaler, M. and Schwille, P.
Biophysical Journal 100 (12): 2981-2990. 22 June 2011

PAR-CliP: a method to identify transcriptome-wide the binding sites of RNA binding proteins.
Hafner, M., Landthaler, M., Burger, L., Khorshid, M., Hausser, J., Berninger, P., Rothballer, A., Ascano, M., Jungkamp, A.C., Munschauer, M., Ulrich, A., Wardle, G.S., Dewell, S., Zavolan, M. and Tuschl, T.
Journal of Visualized Experiments 41 (2034): e2034. 2 July 2010

Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP.
Hafner, M., Landthaler, M., Burger, L., Khorshid, M., Hausser, J., Berninger, P., Rothballer, A., Ascano, M., Jungkamp, A.C., Munschauer, M., Ulrich, A., Wardle, G.S., Dewell, S., Zavolan, M. and Tuschl, T.
Cell 141 (1): 129-141. 2 April 2010

Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets.
Hausser, J., Landthaler, M., Jaskiewicz, L., Gaidatzis, D. and Zavolan, M.
Genome Research 19 (11): 2009-2020. November 2009

Mu opioid receptor knockdown in the substantia nigra/ventral tegmental area by synthetic small interfering RNA blocks the rewarding and locomotor effects of heroin.
Zhang, Y., Landthaler, M., Schlussman, S.D., Yuferov, V., Ho, A., Tuschl, T. and Kreek, M.J.
Neuroscience 158 (2): 474-483. 23 January 2009

DGCR8-dependent microRNA biogenesis is essential for skin development.
Yi, R., Pasolli, H.A., Landthaler, M., Hafner, M., Ojo, T., Sheridan, R., Sander, C., O'Carroll, D., Stoffel, M., Tuschl, T. and Fuchs, E.
Proceedings of the National Academy of Sciences of the United States of America 106 (2): 498-502. 13 January 2009

Cellular cofactors affecting hepatitis C virus infection and replication.
Randall, G., Panis, M., Cooper, J.D., Tellinghuisen, T.L., Sukhodolets, K.E., Pfeffer, S., Landthaler, M., Landgraf, P., Kan, S., Lindenbach, B.D., Chien, M., Weir, D.B., Russo, J.J., Ju, J., Brownstein, M.J., Sheridan, R., Sander, C., Zavolan, M., Tuschl, T. and Rice, C.M.
Proceedings of the National Academy of Sciences of the United States of America 104 (31): 12884-12889. 31 July 2007

A mammalian microRNA expression atlas based on small RNA library sequencing.
Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin, A., Pfeffer, S., Rice, A., Kamphorst, A.O., Landthaler, M., Lin, C., Socci, N.D., Hermida, L., Fulci, V., Chiaretti, S., Foa, R., Schliwka, J., Fuchs, U., Novosel, A., Mueller, R.U., Schermer, B., Bissels, U., Inman, J., Phan, Q., Chien, M., Weir, D.B., Choksi, R., De Vita, G., Frezzetti, D., Trompeter, H.I., Hornung, V., Teng, G., Hartmann, G., Palkovits, M., Di Lauro, R., Wernet, P., Macino, G., Rogler, C.E., Nagle, J.W., Ju, J., Papavasiliou, F.N., Benzing, T., Lichter, P., Tam, W., Brownstein, M.J., Bosio, A., Borkhardt, A., Russo, J.J., Sander, C., Zavolan, M. and Tuschl, T.
Cell 129 (7): 1401-1414. 29 June 2007

SiRNA-mediated selective inhibition of mutant keratin mRNAs responsible for the skin disorder pachyonychia congenita.
Hickerson, R.P., Smith, F.J.D., McLean, W.H.I., Landthaler, M., Leube, R.E. and Kaspar, R.L.
Annals of the New York Academy of Sciences 1082 : 56-61. October 2006

I-BasI and I-HmuI: two phage intron-encoded endonucleases with homologous DNA recognition sequences but distinct DNA specificities.
Landthaler, M., Shen, B.W., Stoddard, B.L. and Shub, D.A.
Journal of Molecular Biology 358 (4): 1137-1151. 12 May 2006

Identification of novel argonaute-associated proteins.
Meister, G., Landthaler, M., Peters, L., Chen, P.Y., Urlaub, H., Luehrmann, R. and Tuschl, T.
Current Biology 15 (23): 2149-2155. 6 December 2005

Retrotransposition strategies of the Lactococcus lactis Ll.LtrB group II intron are dictated by host identity and cellular environment.
Coros, C.J., Landthaler, M., Piazza, C.L., Beauregard, A., Esposito, D., Perutka, J., Lambowitz, A.M. and Belfort, M.
Molecular Microbiology 56 (2): 509-524. April 2005

Endogenous MHC class II processing of a viral nuclear antigen after autophagy.
Paludan, C., Schmid, D., Landthaler, M., Vockerodt, M., Kube, D., Tuschl, T. and Muenz, C.
Science 307 (5709): 593-596. 28 January 2005

The human DiGeorge syndrome critical region gene 8 and its D. melanogaster homolog are required for miRNA biogenesis.
Landthaler, M., Yalcin, A. and Tuschl, T.
Current Biology 14 (23): 2162-2167. 14 December 2004

DNA binding and cleavage by the HNH homing endonuclease I-HmuI.
Shen, B.W., Landthaler, M., Shub, D.A. and Stoddard, B.L.
Journal of Molecular Biology 342 (1): 43-56. 3 September 2004

Group I intron homing in Bacillus phages SPO1 and SP82: a gene conversion event initiated by a nicking homing endonuclease.
Landthaler, M., Lau, N.C. and Shub, D.A.
Journal of Bacteriology 186 (13): 4307-4314. July 2004

Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing.
Meister, G., Landthaler, M., Dorsett, Y. and Tuschl, T.
RNA 10 (3): 544-550. March 2004

The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille.
Landthaler, M. and Shub, D.A.
Nucleic Acids Research 31 (12): 3071-3077. 15 June 2003

Two self-splicing group I introns in the ribonucleotide reductase large subunit gene of Staphylococcus aureus phage Twort.
Landthaler, M., Begley, U., Lau, N.C. and Shub, D.A.
Nucleic Acids Research 30 (9): 1935-1943. 1 March 2002

Intronless homing: site-specific endonuclease SegF of bacteriophage T4 mediates localized marker exclusion analogous to homing endonucleases of group I introns.
Belle, A., Landthaler, M. and Shub, D.A.
Genes & Development 16 (3): 351-362. 2002

Unexpected abundance of self-splicing introns in the genome of bacteriophage Twort: introns in multiple genes, a single gene with three introns, and exon skipping by group I ribozymes.
Landthaler, M. and Shub, D.A.
Proceedings of the National Academy of Sciences of the United States of America 96 (12): 7005-7010. 8 June 1999

Book Section

Transcriptome-wide identification of protein binding sites on RNA by PAR-CLIP (photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation).
Hoell, J.I., Hafner, M., Landthaler, M., Ascano, M., Farazi, T.A., Wardle, G., Nusbaum, J., Cekan, P., Khorshid, M., Burger, L., Zavolan, M. and Tuschl, T.
In: Handbook of RNA Biochemistry: Second, Completely Revised and Enlarged Edition. Wiley-VCH, Weinheim, 877-898. ISBN 9783527327645 2014

Conference or Workshop Item

Label-free detection of global morphology changes in confluent cell layers utilizing quantitative phase imaging with digital holographic microscopy.
Kemper, B., Pohl, L., Kaiser, M., Döpker, E., Schnekenburger, J. and Ketelhut, S.
In: European Conferences on Biomedical Optics 2019, 26-27 Jun 2019, Munich, Germany. 22 July 2019

Nanocapsule induced morphology and migration changes in single cell layers quantified with digital holographic microscopy.
Kaiser, M., Pohl, L., Ketelhut, S., Kastl, L., Gorzelanny, C., Götte, M., Schnekenburger, J., Goycoolea, F.M. and Kemper, B.
In: SPIE BiOS 2019, 2-7 Feb 2019, San Francisco, CA, USA. 4 March 2019

Quantitative phase imaging-based concepts for the analysis of global morphology changes in confluent cell layers.
Kemper, B., Pohl, L., Kaiser, M., Doepker, E., Schnekenburger, J. and Ketelhut, S.
In: SPIE BiOS 2019, 2-7 Feb 2019, San Francisco, CA, USA. 4 March 2019

Review

SARS-CoV-2 in humans.
Binder, M. and Wyler, E.
Berliner und Munchener Tierarztliche Wochenschrift 134 : 1-13. 30 April 2021

Eyes on translation.
Chekulaeva, M. and Landthaler, M.
Molecular Cell 63 (6): 918-925. 15 September 2016

PAR-CLIP (photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation): a step-by-step protocol to the transcriptome-wide identification of binding sites of RNA-binding proteins.
Spitzer, J., Hafner, M., Landthaler, M., Ascano, M., Farazi, T., Wardle, G., Nusbaum, J., Khorshid, M., Burger, L., Zavolan, M. and Tuschl, T.
Methods in Enzymology 539 : 113-161. 25 February 2014

Rapid creation of stable mammalian cell lines for regulated expression of proteins using the Gateway(R) recombination cloning technology and Flp-In T-REx(R) lines.
Spitzer, J., Landthaler, M. and Tuschl, T.
Methods in Enzymology 529 : 99-124. 2013

Transcriptome-wide analysis of protein-RNA interactions using high-throughput sequencing.
Milek, M., Wyler, E. and Landthaler, M.
Seminars in Cell & Developmental Biology 23 (2): 206-212. April 2012

Molecular characterization of human Argonaute-containing ribonucleoprotein complexes and their bound target mRNAs.
Landthaler, M., Gaidatzis, D., Rothballer, A., Chen, P.Y., Soll, S.J., Dinic, L., Ojo, T., Hafner, M., Zavolan, M. and Tuschl, T.
RNA 14 (12): 2580-2596. December 2008

Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs.
Meister, G., Landthaler, M., Patkaniowska, A., Dorsett, Y., Teng, G. and Tuschl, T.
Molecular Cell 15 (2): 185-197. 23 July 2004

Editorial

Chaperones get RISC loaded.
Landthaler, M.
Molecular Cell 39 (2): 161-162. 30 July 2010

Preprint

Poxviruses induce a nuclear environment in the cytoplasm to promote viral replication.
Veratti, P., Wyler, E., Read, C., Scherer, M., Tan, J., Walther, P., Wider, S., Weidl, D. and Full, F.
bioRxiv : 2024.11.21.624458. 22 November 2024

Rewired type I IFN signaling is linked to age-dependent differences in COVID-19.
Petrov, L., Brumhard, S., Wisniewski, S., Georg, P., Hillus, D., Hiller, A., Astaburuaga-García, R., Blüthgen, N., Wyler, E., Vogt, K., Dey, H.P., von Stillfried, S., Iwert, C., Bülow, R.D., Märkl, B., Maas, L., Langner, C., Meyer, T., Loske, J., Eils, R., Lehmann, I., Ondruschka, B., Ralser, M., Trimpert, J., Boor, P., Bedoui, S., Meisel, C., Mall, M.A., Corman, V.M., Sander, L.E., Röhmel, J. and Sawitzki, B.
bioRxiv : 2024.10.23.619479. 23 October 2024

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation.
Vučićević, D., Hsu, C.W., Lopez Zepeda, L.S., Burkert, M., Hirsekorn, A., Bilić, I., Kastelić, N., Landthaler, M., Lacadie, S.A. and Ohler, U.
bioRxiv : 2024.09.12.612198. 12 September 2024

IGF1R is protective in pneumococcal pneumonia.
Felten, M., Teixeira Alves, L.G., Letsiou, E., Arnedo, E.A., Piñeiro-Hermida, S., López, I.P., Dietert, K., Firsching, T., Gruber, A.D., Fatykhova, D., Hocke, A., Lingscheid, T., Lienau, J., Rohde, G., Pichel, J.G. and Witzenrath, M.
bioRxiv : 2024.09.11.612370. 11 September 2024

DNA virus infections shape transposable elements activity in vitro and in vivo.
Tan, J., Franke, V., Neugebauer, E., Lagisquet, J., Kuderna, A.K., Walter, S., Landthaler, M., Ensser, A., Stamminger, T., Gramberg, T., Akalin, A., Wyler, E. and Full, F.
bioRxiv : 2024.04.18.589901. 19 April 2024

Rapid UPF1 depletion illuminates the temporal dynamics of the NMD-regulated transcriptome in human cells.
Boehm, V., Wallmeroth, D., Wulf, P.O., Teixeira Alves, L.G., Popp, O., Riedel, M., Wyler, E., Franitza, M., Gerbracht, J.V., Becker, K., Polkovnychenko, K., Del Giudice, S., Benlasfer, N., Mertins, P., Landthaler, M. and Gehring, N.H.
bioRxiv : 2024.03.04.583328. 8 March 2024

Gut microbiota dysbiosis is associated with altered tryptophan metabolism and dysregulated inflammatory response in severe COVID-19.
Essex, M., Pascual-Leone, B.M., Löber, U., Kuhring, M., Zhang, B., Bruening, U., Fritsche-Guenther, R., Krzanowski, M., Vernengo, F.F., Brumhard, S., Röwekamp, I., Bielecka, A.A., Lesker, T.R., Wyler, E., Landthaler, M., Mantei, A., Meisel, C., Caesar, S., Thiebeault, C., Corman, V., Marko, L., Suttorp, N., Strowig, T., Kurth, F., Sander, L.E., Li, Y., Kirwan, J.A., Forslund, S.K. and Opitz, B.
bioRxiv : 2022.12.02.518860. 2 December 2022

Timed global reorganization of protein synthesis during neocortex neurogenesis at codon resolution.
Harnett, D., Ambrozkiewicz, M.C., Zinnall, U., Borisova, E., Rusanova, A., Dannenberg, R., Imami, K., Münster-Wandowski, A., Fauler, B., Mielke, T., Selbach, M., Landthaler, M., Spahn, C.M.T., Tarabykin, V., Ohler, U. and Kraushar, M.L.
bioRxiv : 2021.06.23.449626. 24 June 2021

Single-cell transcriptomic analysis of antiviral responses and viral antagonism in Chikungunya virus-infected synovial fibroblasts.
Pott, F., Postmus, D., Brown, R.J.P., Wyler, E., Neumann, E., Landthaler, M. and Goffinet, C.
bioRxiv : 2020.06.07.138610. 11 June 2021

Herpesviral induction of germline transcription factor DUX4 is critical for viral gene expression.
Walter, S., Franke, V., Drayman, N., Wyler, E., Tay, S., Landthaler, M., Akalin, A., Ensser, A. and Full, F.
bioRxiv : 2021.03.24.436599. 24 March 2021

Neurodegeneration in human brain organoids infected with herpes simplex virus type 1.
Rybak-Wolf, A., Wyler, E., Legnini, I., Loewa, A., Glažar, P., Kim, S.J., Pentimalli, T.M., Oliveras Martinez, A., Beyersdorf, B., Woehler, A., Landthaler, M. and Rajewsky, N.
bioRxiv : 2021.03.05.434122. 7 March 2021

Longitudinal omics in Syrian hamsters integrated with human data unravel cellular effector responses to moderate COVID-19.
Nouailles, Geraldine, Wyler, E., Pennitz, P., Postmus, D., Vladrimirova, D., Kazmierski, J., Pott, F., Dietert, K., Mülleder, M.l, Farztdinov, V., Obermayer, B., Wienhold, S.M., Andreotti, S., Hoefler, T., Sawitzki, B., Drosten, C., Sander, L., Suttorp, N., Ralser, M., Beule, D., Gruber, A., Goffinet, C., Landthaler, M., Trimpert, J. and Witzenrath, M.
Research Square : rs-148392/v1. 28 January 2021

Single cell RNA-sequencing-based analysis of CD4(+) T-cell subset-specific susceptibility to transcriptional modulation by HIV-1 latency-reversing agents.
Kazmierski, J., Postmus, D., Wyler, E., Fischer, C., Jansen, J., Meixenberger, K., Vitcetz, S.N., Sohn, M., Sauer, S., Bannert, N., Landthaler, M. and Goffinet, C.
bioRxiv : 2020.05.04.075119. 5 May 2020

Quantifying multi-layered expression regulation in response to stress of the endoplasmic reticulum.
Rendleman, J., Cheng, Z., Maity, S., Kastelic, N., Munschauer, M., Allgoewer, K., Teo, G., Zhang, Y.B., Lei, A., Parker, B., Landthaler, M., Freeberg, L., Kuersten, S., Choi, H. and Vogel, C.
bioRxiv : 308379. 25 April 2018