List of Selected Publications


  • Enz, L. S., T. Zeis, D. Schmid, F. Geier, F. van der Meer, G. Steiner, U. Certa, T. M. C. Binder, C. Stadelmann, R. Martin and N. Schaeren-Wiemers (2020). "Increased HLA-DR expression and cortical demyelination in MS links with HLA-DR15." Neurol Neuroimmunol Neuroinflamm7(2).
  • Fisch, U., C. Brégère, F. Geier, L. Chicha and R. Guzman (2020). "Neonatal hypoxia-ischemia in rat elicits a region-specific neurotrophic response in SVZ microglia." J Neuroinflammation17(1): 26.
  • Lehmann, F. M., N. von Burg, R. Ivanek, C. Teufel, E. Horvath, A. Peter, G. Turchinovich, D. Staehli, T. Eichlisberger and M. G. de Agüero (2020). "Microbiota-induced tissue signals regulate ILC3-mediated antigen presentation." Nature communications11(1): 1-15.
  • Meyer-Schaller, N., S. Tiede, R. Ivanek, M. Diepenbruck and G. Christofori (2020). "A dual role of Irf1 in maintaining epithelial identity but also enabling EMT and metastasis formation of breast cancer cells." Oncogene: 1-13.
  • Quero, L., A. N. Tiaden, E. Hanser, J. Roux, A. Laski, J. Hall and D. Kyburz (2020). "miR-221-3p Drives the Shift of M2-Macrophages to a Pro-Inflammatory Function by Suppressing JAK3/STAT3 Activation." Frontiers in Immunology10(3087).
  • Tissières, V., F. Geier, B. Kessler, E. Wolf, R. Zeller and J. Lopez-Rios (2020). "Gene Regulatory and Expression Differences between Mouse and Pig Limb Buds Provide Insights into the Evolutionary Emergence of Artiodactyl Traits." Cell Rep31(1): 107490.
  • Wuggenig P, Kaya B, Melhem H, Ayata CK, Swiss IBD Cohort Investigators; Hruz P, Sayan AE, Tsumura H, Ito M, Roux J, Niess JH (2020). "Loss of the branched-chain amino acid transporter CD98hc alters the development of colonic macrophages in mice." Communications Biology3(1): 130.


  • Bosch, A. J. T., T. V. Rohm, S. AlAsfoor, Z. Baumann, M. Stawiski, T. Dervos, S. Mitrovic, J. Roux, D. T. Meier and C. Cavelti-Weder (2019). "Air pollution mediates diabetes by disrupting gut innate mucosal immunity." bioRxiv: 827014.
  • Burgener, A.-V., G. R. Bantug, B. J. Meyer, R. Higgins, A. Ghosh, O. Bignucolo, E. H. Ma, J. Loeliger, G. Unterstab and M. Geigges (2019). "SDHA gain-of-function engages inflammatory mitochondrial retrograde signaling via KEAP1–Nrf2." Nature immunology20(10): 1311-1321.
  • Ishay-Ronen, D., M. Diepenbruck, R. K. R. Kalathur, N. Sugiyama, S. Tiede, R. Ivanek, G. Bantug, M. F. Morini, J. Wang and C. Hess (2019). "Gain fat—lose metastasis: converting invasive breast cancer cells into adipocytes inhibits cancer metastasis." Cancer Cell35(1): 17-32.
  • Klein, F., M. Mitrovic, J. Roux, C. Engdahl, L. von Muenchow, L. Alberti-Servera, H. J. Fehling, P. Pelczar, A. Rolink and P. Tsapogas (2019). "The transcription factor Duxbl mediates elimination of pre-T cells that fail β-selection." The Journal of Experimental Medicine: jem.20181444.
  • Künzli, M., D. P. Schreiner, T. Pereboom, N. Swarnalekha, J. Lötscher, Y. I. Ertuna, J. Roux, F. Geier, C. Hess, J. T. Taylor and C. G. King (2019). "Persistence and plasticity of T follicular memory cells." bioRxiv: 677559.
  • Meyer-Schaller, N., M. Cardner, M. Diepenbruck, M. Saxena, S. Tiede, F. Lüönd, R. Ivanek, N. Beerenwinkel and G. Christofori (2019). "A hierarchical regulatory landscape during the multiple stages of EMT." Developmental cell48(4): 539-553.
  • Radulovic, K., C. K. Ayata, R. Mak'Anyengo, K. Lechner, P. Wuggenig, B. Kaya, P. Hruz, M. Gomez de Aguero, P. Broz, B. Weigmann and J. H. Niess (2019). "NLRP6 Deficiency in CD4 T Cells Decreases T Cell Survival Associated with Increased Cell Death." J Immunol.
  • Rao, T. N., N. Hansen, J. Hilfiker, S. Rai, J. M. Majewska, D. Leković, D. Gezer, N. Andina, S. Galli, T. Cassel, F. Geier, J. Delezie, R. Nienhold, H. Hao-Shen, C. Beisel, S. Di Palma, S. Dimeloe, J. Trebicka, D. Wolf, M. Gassmann, T. W. Fan, A. N. Lane, C. Handschin, S. Dirnhofer, N. Kröger, C. Hess, T. Radimerski, S. Koschmieder, V. P. Čokić and R. C. Skoda (2019). "JAK2-mutant hematopoietic cells display metabolic alterations that can be targeted to treat myeloproliferative neoplasms." Blood134(21): 1832-1846.
  • Reinhardt, R., F. Gullotta, G. Nusspaumer, E. Ünal, R. Ivanek, A. Zuniga and R. Zeller (2019). "Molecular signatures identify immature mesenchymal progenitors in early mouse limb buds that respond differentially to morphogen signaling." Development146(10): dev173328.
  • Stüdle, C., P. Occhetta, F. Geier, A. Mehrkens, A. Barbero and I. Martin (2019). "Challenges Toward the Identification of Predictive Markers for Human Mesenchymal Stromal Cells Chondrogenic Potential." Stem Cells Transl Med8(2): 194-204.
  • Tiede, S., N. Meyer-Schaller, R. K. R. Kalathur, R. Ivanek, E. Fagiani, P. Schmassmann, P. Stillhard, S. Häfliger, N. Kraut and N. Schweifer (2018). "The FAK inhibitor BI 853520 exerts anti-tumor effects in breast cancer." Oncogenesis7(9): 1-19.
  • Trefny, M. P., S. I. Rothschild, F. Uhlenbrock, D. Rieder, B. Kasenda, M. A. Stanczak, F. Berner, A. S. Kashyap, M. Kaiser, P. Herzig, S. Poechtrager, D. S. Thommen, F. Geier, S. Savic, P. Jermann, I. Alborelli, S. Schaub, F. Stenner, M. Früh, Z. Trajanoski, L. Flatz, K. D. Mertz, A. Zippelius and H. Läubli (2019). "A Variant of a Killer Cell Immunoglobulin-like Receptor Is Associated with Resistance to PD-1 Blockade in Lung Cancer." Clin Cancer Res25(10): 3026-3034.


  • Drobek, A., A. Moudra, D. Mueller, M. Huranova, V. Horkova, M. Pribikova, R. Ivanek, S. Oberle, D. Zehn and K. D. McCoy (2018). "Strong homeostatic TCR signals induce formation of self‐tolerant virtual memory CD8 T cells." The EMBO journal37(14).
  • Rodrigues, P. F., L. Alberti-Servera, A. Eremin, G. E. Grajales-Reyes, R. Ivanek and R. Tussiwand (2018). "Distinct progenitor lineages contribute to the heterogeneity of plasmacytoid dendritic cells." Nature immunology19(7): 711-722.


  • Alberti‐Servera, L., L. von Muenchow, P. Tsapogas, G. Capoferri, K. Eschbach, C. Beisel, R. Ceredig, R. Ivanek and A. Rolink (2017). "Single‐cell RNA sequencing reveals developmental heterogeneity among early lymphoid progenitors." The EMBO journal36(24): 3619-3633.
  • Däster, S., N. Amatruda, D. Calabrese, R. Ivanek, E. Turrini, R. A. Droeser, P. Zajac, C. Fimognari, G. C. Spagnoli and G. Iezzi (2017). "Induction of hypoxia and necrosis in multicellular tumor spheroids is associated with resistance to chemotherapy treatment." Oncotarget8(1): 1725.
  • Diepenbruck, M., S. Tiede, M. Saxena, R. Ivanek, R. K. R. Kalathur, F. Lüönd, N. Meyer-Schaller and G. Christofori (2017). "miR-1199-5p and Zeb1 function in a double-negative feedback loop potentially coordinating EMT and tumour metastasis." Nature communications8(1): 1-14.
  • Mochizuki, M., V. Lorenz, R. Ivanek, G. Della Verde, E. Gaudiello, A. Marsano, O. Pfister and G. M. Kuster (2017). "Polo‐Like Kinase 2 is Dynamically Regulated to Coordinate Proliferation and Early Lineage Specification Downstream of Yes‐Associated Protein 1 in Cardiac Progenitor Cells." Journal of the American Heart Association6(10): e005920.
  • Raykova, A., P. Carrega, F. M. Lehmann, R. Ivanek, V. Landtwing, I. Quast, J. D. Lünemann, D. Finke, G. Ferlazzo and O. Chijioke (2017). "Interleukins 12 and 15 induce cytotoxicity and early NK-cell differentiation in type 3 innate lymphoid cells." Blood advances1(27): 2679-2691.


  • Fallet B, Narr K, Ertuna YI, Remy M, Sommerstein R, Cornille K, Kreutzfeldt M, Page N, Zimmer G,Geier F, Straub T, Pircher H, Larimore K, Greenberg PD, Merkler D, Pinschewer DD. (2016) “Interferon-driven deletion of antiviral B cells at the onset of chronic infection.” Science Immunology Oct 21;1(4)
  • Hahne, F. and R. Ivanek (2016). Visualizing genomic data using Gviz and bioconductor. Statistical genomics, Humana Press, New York, NY: 335-351.
  • Komljenovic, A., J. Roux, M. Robinson-Rechavi and F. Bastian (2016). BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests.
  • Shimizu T, Kubovcakova L, Nienhold R, Zmajkovic J, Meyer SC, Hao-Shen H,Geier F, Dirnhofer S, Guglielmelli P, Vannucchi AM, Feenstra JD, Kralovics R, Orkin SH, Skoda RC. (2016) “Loss of Ezh2 synergizes with JAK2-V617F in initiating myeloproliferative neoplasms and promoting myelofibrosis.” J Exp Med. 213(8):1479-96


  • Fagiani, E., R. Bill, L. Pisarsky, R. Ivanek, C. Rüegg and G. Christofori (2015). "An immature B cell population from peripheral blood serves as surrogate marker for monitoring tumor angiogenesis and anti-angiogenic therapy in mouse models." Angiogenesis18(3): 327-345.
  • Giachino, C., J.-L. Boulay, R. Ivanek, A. Alvarado, C. Tostado, S. Lugert, J. Tchorz, M. Coban, L. Mariani and B. Bettler (2015). "A tumor suppressor function for notch signaling in forebrain tumor subtypes." Cancer cell28(6): 730-742.
  • Hirt, C., A. Papadimitropoulos, M. G. Muraro, V. Mele, E. Panopoulos, E. Cremonesi, R. Ivanek, E. Schultz-Thater, R. A. Droeser and C. Mengus (2015). "Bioreactor-engineered cancer tissue-like structures mimic phenotypes, gene expression profiles and drug resistance patterns observed “in vivo”." Biomaterials62: 138-146.
  • Moretti, F., C. Rolando, M. Winker, R. Ivanek, J. Rodriguez, A. Von Kriegsheim, V. Taylor, M. Bustin and O. Pertz (2015). "Growth cone localization of the mRNA encoding the chromatin regulator HMGN5 modulates neurite outgrowth." Molecular and cellular biology35(11): 2035-2050.


  • Diepenbruck, M., L. Waldmeier, R. Ivanek, P. Berninger, P. Arnold, E. van Nimwegen and G. Christofori (2014). "Tead2 expression levels control the subcellular distribution of Yap and Taz, zyxin expression and epithelial–mesenchymal transition." J Cell Sci127(7): 1523-1536.
  • Lopez-Rios, J., A. Duchesne, D. Speziale, G. Andrey, K. A. Peterson, P. Germann, E. Ünal, J. Liu, S. Floriot and S. Barbey (2014). "Attenuated sensing of SHH by Ptch1 underlies evolution of bovine limbs." Nature511(7507): 46-51.
  • Osterwalder, M., D. Speziale, M. Shoukry, R. Mohan, R. Ivanek, M. Kohler, C. Beisel, X. Wen, S. J. Scales and V. M. Christoffels (2014). "HAND2 targets define a network of transcriptional regulators that compartmentalize the early limb bud mesenchyme." Developmental cell31(3): 345-357.
  • Vigano, M. A., R. Ivanek, P. Balwierz, P. Berninger, E. van Nimwegen, K. Karjalainen and A. Rolink (2014). "An epigenetic profile of early T‐cell development from multipotent progenitors to committed T‐cell descendants." European journal of immunology44(4): 1181-1193.


  • Dertschnig, S., G. Nusspaumer, R. Ivanek, M. M. Hauri-Hohl, G. A. Holländer and W. Krenger (2013). "Epithelial cytoprotection sustains ectopic expression of tissue-restricted antigens in the thymus during murine acute GVHD." Blood, The Journal of the American Society of Hematology122(5): 837-841