GRK 1591:  Posttranscriptional Control of Gene Expression: Mechanisms and Role in Pathogenesis

• Subject Area: Basic Research in Biology and Medicine
• Term: from 2010 to 2019
• Project identifier: Deutsche Forschungsgemeinschaft (DFG) - Project number 105533105

• Final Report Year: 2019

Final Report Abstract

The RTG1591 „Post-transcriptional control of gene expression: mechanisms and role in pathogenesis” was established at the Martin Luther University Halle-Wittenberg (MLU) in 2010. Its main goal was the structured training of PhD and MD students in investigating how deregulation of gene expression at the level of (m)RNA modulates diseases in humans and plants. To this end, the RTG1591 combined interdisciplinary research efforts of scientists from respective fields who aimed at investigating molecular mechanisms underlying the post-transcriptional control of gene expression (PTCG), the role of deregulated PTCG in human diseases encompassing cardiovascular diseases as well as cancer, and the deregulated PTCG in plants and plant-pathogen interactions. These efforts allowed establishing a truly interdisciplinary training framework for natural science as well as medical students. The major goal of the training network was to educate students in high-end technologies, theoretical as well as professional skills to pursue an independent career in academia or industry. The scientific goal of the RTG1591 was to promote our understanding of disease-relevant mechanisms underlying the RNA-dependent control of gene expression. This research focus was motivated by the substantial progress in this research field since the beginning of this millennium when the impact and ample applications of small interfering RNAs (siRNAs), microRNAs, sRNAs (small bacterial RNAs) and RNA-binding proteins (RBPs) modulating their mode of action was begun to be unraveled. Although the medical and agricultural application of the since then gained knowledge is still in its infancy, the recent approval of the first RNA-based medication like nusinersen and patisiran emphasizes the hyperopia of establishing a structured training program for early career scientists to fuel the progress of the involved research efforts. The RTG1591 directly supported and trained 45 natural scientist PhD and 16 medical students since 2010. The vast majority of these successfully pursued an academic career in the RNA field or in pharmaceutic industry. The scientific output of the RTG1591 was substantial with 46 peer-reviewed scientific articles published since 2010 with participation of students directly supported by the RTG1591 and a total of 102 publications of RTG1591-associated publications. Moreover, the design and leitmotiv of the RTG1591’s training program inspired the establishment of two other research training groups at the MLU, the RTG2155 and the RTG2467. These evolved and adapted the training concepts of the RTG1591 to fit their field of research interest. Most importantly, however, the major progress in addressing the role of RNA/RBP-guided regulation of gene expression (R3oGE) in human diseases inspired by the RTG1591 set the stage for a collaborative research center initiative (CRC1440) entitled “RNA in focus (RIF) – From mechanisms to novel therapeutic strategies in human medicine”. The CRC1440 aims at continuing the research efforts of the RTG1591 at a scientifically evolved level to pursue new therapeutic avenues settling on the gained knowledge on the role of R3oGE in cancer. To this end scientists participating in the RTG1591 at the MLU and recently recruited colleagues of the medical faculty of the MLU plan to join efforts with colleagues located at research institutions in Leipzig. In retro perspective, the RTG1591 had a substantial, trend-setting impact on establishing and evolving training concepts for graduate students and significantly contributed to establishing a competitive research framework in the central German region. This future investment of the DFG set the stage to proceed and establish research efforts aiming at implementing insights gained or initiated by the RTG1591 to pursue new applications in agriculture and medicine.

Publications

• A novel family of plasmid-transferred anti-sense ncRNAs. (2010) RNA Biol.
  Findeiß, S., Schmidtke, C., Stadler, P.F. and Bonas, U.
  
• Downregulation of microRNAs directs the EMT and invasive potential of anaplastic thyroid carcinomas. (2010) Oncogene
  Braun J, Hoang-Vu C, Dralle H, Hüttelmaier S
  
• Arginine methylation of the nuclear poly(a) binding protein weakens the interaction with its nuclear import receptor, transportin. (2011) J Biol Chem.
  Fronz, K., Guttinger, S., Burkert, K., Kuhn, U., Stohr, N., Schierhorn, A. and Wahle, E.
  
• Consequences of epidermal growth factor receptor (ErbB1) loss for vascular smooth muscle cells from mice with targeted deletion of ErbB1. (2011) Arterioscler Thromb Vasc Biol.
  Schreier, B., Dohler, M., Rabe, S., Schneider, B., Schwerdt, G., Ruhs, S., Sibilia, M., Gotthardt, M., Gekle, M. and Grossmann, C.
  
• Linkage of microRNA and proteome-based profiling data sets: a perspective for the priorization of candidate biomarkers in renal cell carcinoma? (2011) J Proteome Res.
  Seliger, B., Jasinski, S., Dressler, S.P., Marincola, F.M., Recktenwald, C.V., Wang, E. and Lichtenfels, R.
  
• Pathogenic mechanisms of deregulated microRNA expression in thyroid carcinomas of follicular origin. (2011) Thyroid Research.
  Braun J, Misiak D, Busch B, Krohn K, Hüttelmaier S
  
• Scratch assay analysis with topology-preserving level sets and texture measures. Proc. of 5th Iberian Conference on Pattern Recognition and Image Analysis (IbPRIA '11), (2011) pages 100-108, Gran Canaria, Spain
  Glaß M, Möller B, Zirkel A, Wächter K, Hüttelmaier S, Posch S
  
• Cell migration analysis: Segmenting scratch assay images with level sets and support vector machines. (2012) Pattern Recognition
  Glaß M, Möller B, Zirkel A, Wächter K, Hüttelmaier S, Posch S
  
• Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions. (2012) Nucleic Acids Res.
  Schmidtke, C., Findeiß, S., Sharma, C.M., Kuhfuss, J., Hoffmann, S., Vogel, J., Stadler, P.F. and Bonas, U.
  
• Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions. (2012) Nucleic Acids Res.
  Schmidtke, C., Findeiß, S., Sharma, C.M., Kuhfuss, J., Hoffmann, S., Vogel, J., Stadler, P.F. and Bonas, U.
  
• HER-2/neu-mediated down-regulation of biglycan associated with altered growth properties. (2012) J Biol Chem.
  Recktenwald, C.V., Leisz, S., Steven, A., Mimura, K., Muller, A., Wulfanger, J., Kiessling, R. and Seliger, B.
  
• IGF2BP1 promotes cell migration by regulating K5 and PTEN signaling. (2012) Genes Dev
  MStohr, N., Kohn, M., Lederer, M., Glass, M., Reinke, C., Singer, R.H. and Huttelmaier, S.
  
• IGF2BP1: a post-transcriptional "driver" of tumor cell migration. (2012) Cell Adh Migr.
  Stohr, N. and Huttelmaier, S.
  
• Maturation of mammalian H/ACA box snoRNAs: PAPD5-dependent adenylation and PARN-dependent trimming. (2012) RNA
  Berndt, H., Harnisch, C., Rammelt, C., Stohr, N., Zirkel, A., Dohm, J.C., Himmelbauer, H., Tavanez, J.P., Huttelmaier, S. and Wahle, E.
  
• Maturation of mammalian H/ACA box snoRNAs: PAPD5-dependent adenylation and PARN-dependent trimming. (2012) RNA
  Berndt, H., Harnisch, C., Rammelt, C., Stohr, N., Zirkel, A., Dohm, J.C., Himmelbauer, H., Tavanez, J.P., Huttelmaier, S. and Wahle, E.
  
• Maturation of mammalian H/ACA box snoRNAs: PAPD5-dependent adenylation and PARN-dependent trimming. (2012) RNA
  Berndt, H., Harnisch, C., Rammelt, C., Stohr, N., Zirkel, A., Dohm, J.C., Himmelbauer, H., Tavanez, J.P., Huttelmaier, S. and Wahle, E.
  
• Optimizing the enrichment of cross-linked products for mass spectrometric protein analysis. (2012) Rapid Commun Mass Spectrom
  Fritzsche, R., Ihling, C.H., Götze, M., and Sinz, A. .
  
• Protein kinase D1 mediates anchorage-dependent and -independent growth of tumor cells via the zinc finger transcription factor Snail1. (2012) J Biol Chem.
  Eiseler, T., Kohler, C., Nimmagadda, S.C., Jamali, A., Funk, N., Joodi, G., Storz, P. and Seufferlein, T.
  
• StavroX--a software for analyzing crosslinked products in protein interaction studies. (2012) Journal of the American Society for Mass Spectrometry
  Gotze, M., Pettelkau, J., Schaks, S., Bosse, K., Ihling, C.H., Krauth, F., Fritzsche, R., Kuhn, U., and Sinz, A.
  
• The role of classical and non-classical HLA class I antigens in human tumors. (2012) Semin Cancer Biol.
  Bukur, J., Jasinski, S. and Seliger, B.
  
• TRIM16 acts as an E3 ubiquitin ligase and can heterodimerize with other TRIM family members. (2012) PLoS One
  Bell JL, Malyukova A, Holien JK, Koach J, Parker MW, Kavallaris M, Marshall GM, Cheung BB
  
• A novel splice variant of calcium and integrin-binding protein 1 mediates protein kinase D2-stimulated tumour growth by regulating angiogenesis. (2013) Oncogene
  Armacki, M., Joodi, G., Nimmagadda, S.C., de Kimpe, L., Pusapati, G.V., Vandoninck, S., Van Lint, J., Illing, A. and Seufferlein, T.
  
• AGO/RISC-mediated antiviral RNA silencing in a plant in vitro system. (2013) Nucleic acids research
  Schuck, J., Gursinsky, T., Pantaleo, V., Burgyan, J., and Behrens, S.E.
  
• AGO/RISC-mediated antiviral RNA silencing in a plant in vitro system. (2013) Nucleic acids research
  Schuck, J., Gursinsky, T., Pantaleo, V., Burgyan, J., and Behrens, S.E.
  
• FMRP regulates actin filament organization via the armadillo protein p0071. (2013) RNA
  Nolze A., Schneider J., Keil R., Lederer M, Hüttelmaier S, Kessels MM, Qualmann B, Hatzfeld M
  
• HER-2/neu mediates oncogenic transformation via altered CREB expression and function. (2013) Molecular cancer research
  Steven, A., Leisz, S., Massa, C., Iezzi, M., Lattanzio, R., Lamolinara, A., Bukur, J., Muller, A., Hiebl, B., Holzhausen, H.J., and Seliger, B.
  
• Identification of Drosophila and human 7-methyl GMP-specific nucleotidases. (2013) The Journal of biological chemistry
  Buschmann, J., Moritz, B., Jeske, M., Lilie, H., Schierhorn, A., and Wahle, E.
  
• IGF2BP1 promotes mesenchymal cell properties and migration of tumor-derived cells by enhancing the expression of LEF1 and SNAI2 (SLUG). (2013) Nucleic Acids Res.
  Nikolaos (MD) Zirkel, A., Lederer, M., Stohr, N., Pazaitis, N. and Huttelmaier, S.
  
• IGF2BP1 promotes mesenchymal cell properties and migration of tumor-derived cells by enhancing the expression of LEF1 and SNAI2 (SLUG). (2013) Nucleic Acids Res.
  Anne Zirkel, A., Lederer, M., Stohr, N., Pazaitis, N. and Huttelmaier, S.
  
• IGF2BP1 promotes mesenchymal cell properties and migration of tumor-derived cells by enhancing the expression of LEF1 and SNAI2 (SLUG). (2013) Nucleic Acids Res.
  Zirkel, A., Lederer, M., Stohr, N., Pazaitis, N. and Huttelmaier, S
  
• Insulin-like growth factor 2 mRNA-binding proteins (IGF2BPs): post-transcriptional drivers of cancer progression? (2013) Cell Mol Life Sci.
  Bell JL, Wächter K, Mühleck B, Pazaitis N, Köhn M, Lederer M, Hüttelmaier S
  
• Insulin-like growth factor 2 mRNA-binding proteins (IGF2BPs): post-transcriptional drivers of cancer progression? (2013) Cell Mol Life Sci.
  Bell JL, Wächter K, Mühleck B, Pazaitis N, Köhn M, Lederer M, Hüttelmaier S
  
• Loss of epidermal growth factor receptor in vascular smooth muscle cells and cardiomyocytes causes arterial hypotension and cardiac hypertrophy. (2013) Hypertension
  Schreier, B., Rabe, S., Schneider, B., Bretschneider, M., Rupp, S., Ruhs, S., Neumann, J., Rueckschloss, U., Sibilia, M., Gotthardt, M. et al.
  
• Small RNA sX13: a multifaceted regulator of virulence in the plant pathogen Xanthomonas. (2013) PLoS Pathog.
  Schmidtke, C., Abendroth, U., Brock, J., Serrania, J., Becker, A. and Bonas, U.
  
• Small RNA sX13: a multifaceted regulator of virulence in the plant pathogen Xanthomonas. (2013) PLoS Pathog.
  Schmidtke, C., Abendroth, U., Brock, J., Serrania, J., Becker, A. and Bonas, U.
  
• Subcellular localization and RNP formation of IGF2BPs (IGF2 mRNA-binding proteins) is modulated by distinct RNA-binding domains. (2013) Biol Chem.
  Wachter, K., Kohn, M., Stohr, N. and Huttelmaier, S.
  
• Transcription factor C/EBPalpha-induced microRNA-30c inactivates Notch1 during granulopoiesis and is downregulated in acute myeloid leukemia. (2013) Blood
  Katzerke, C., Madan, V., Gerloff, D., Brauer-Hartmann, D., Hartmann, J.U., Wurm, A.A., Muller-Tidow, C., Schnittger, S., Tenen, D.G., Niederwieser, Behre G.
  
• TRIM16 inhibits neuroblastoma cell proliferation through cell cycle regulation and dynamic nuclear localization. (2013) Cell Cycle
  Bell JL, Malyukova A, Kavallaris M, Marshall GM, Cheung BB
  
• Why YRNAs? About Versatile RNAs and Their Functions. (2013) Biomolecules
  Köhn M, Pazaitis N, Hüttelmaier S.
  
• (2014). Smaug destroys a huge treasure. Genome biology 15, 101
  Götze, M., and Wahle, E.
  
• Antiviral interferon-beta signaling induced by designed transcription activator-like effectors (TALE). (2014) PLoS One
  Renner, I., Funk, N., Geissler, R., Friedrich, S., Penzel, A., and Behrens, S.E.
  
• Antiviral interferon-beta signaling induced by designed transcription activator-like effectors (TALE). (2014) PLoS One
  Renner, I., Funk, N., Geissler, R., Friedrich, S., Penzel, A., and Behrens, S.E.
  
• AUF1 p45 promotes West Nile virus replication by an RNA chaperone activity that supports cyclization of the viral genome. (2014) J Virol
  Friedrich, S., Schmidt, T., Geissler, R., Lilie, H., Chabierski, S., Ulbert, S., Liebert, U.G., Golbik, R.P., and Behrens, S.E.
  
• Crystal structures of the novel cytosolic 5'-nucleotidase IIIB explain its preference for m7GMP. (2014) PloS one
  Monecke, T., Buschmann, J., Neumann, P., Wahle, E., and Ficner, R.
  
• Effects of a novel long noncoding RNA, lncUSMycN, on N-Myc expression and neuroblastoma progression. (2014 ) J Natl Cancer Inst.
  Liu PY, Erriquez D, Marshall GM, Tee AE, Polly P, Wong M, Liu B, Bell JL, Zhang XD, Milazzo G, Cheung BB, Fox A, Swarbrick A, Hüttelmaier S, Kavallaris M, Perini G, Mattick JS, Dinger ME, Liu T
  
• Identification of 14-3-3β gene as a novel miR-152 target using a proteome-based approach. (2014) J Biol Chem.
  Jasinski-Bergner S, Stehle F, Gonschorek E, Kalich J, Schulz K, Huettelmaier S, Braun J, Seliger B
  
• Identification of 14-3-3β gene as a novel miR-152 target using a proteome-based approach. (2014) J Biol Chem.
  Jasinski-Bergner S, Stehle F, Gonschorek E, Kalich J, Schulz K, Huettelmaier S, Braun J, Seliger B
  
• Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) is an important protumorigenic factor in hepatocellular carcinoma. (2014) Hepatology
  Gutschner T, Hämmerle M, Pazaitis N, Bley N, Fiskin E, Uckelmann H, Heim A, Groβ M, Hofmann N, Geffers R, Skawran B, Longerich T, Breuhahn K, Schirmacher P, Mühleck B, Hüttelmaier S, Diederichs S
  
• Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) is an important protumorigenic factor in hepatocellular carcinoma. (2014) Hepatology
  Gutschner T, Hämmerle M, Pazaitis N, Bley N, Fiskin E, Uckelmann H, Heim A, Groβ M, Hofmann N, Geffers R, Skawran B, Longerich T, Breuhahn K, Schirmacher P, Mühleck B, Hüttelmaier S, Diederichs S
  
• Rapid identification of regulatory microRNAs by miTRAP (miRNA trapping by RNA in vitro affinity purification). (2014) Nucleic Acids Res.
  Braun J, Misiak D, Busch B, Krohn K, Hüttelmaier S
  
• Rapid identification of regulatory microRNAs by miTRAP (miRNA trapping by RNA in vitro affinity purification). (2014) Nucleic Acids Res.
  Braun J, Misiak D, Busch B, Krohn K, Hüttelmaier S
  
• Reconstitution of CPSF active in polyadenylation: recognition of the polyadenylation signal by WDR33. (2014) Genes & Development
  Schönemann, L., Kühn, U., Martin, G., Schäfer, P., Gruber, A. R., Keller, W., Zavolan, M., Wahle, E.
  
• Reconstitution of CPSF active in polyadenylation: recognition of the polyadenylation signal by WDR33. (2014) Genes & Development
  Schönemann, L., Kühn, U., Martin, G., Schäfer, P., Gruber, A. R., Keller, W., Zavolan, M., Wahle, E.
  
• Small non-coding RNAs in plant-pathogenic Xanthomonas spp. (2014) RNA Biology
  Abendroth, U., Schmidtke, C. and Bonas, U.
  
• Synergistic effects of IL-4 and TNFα on the induction of B7-H1 in renal cell carcinoma cells inhibiting allogeneic T cell proliferation. (2014) J Transl Med
  Quandt D, Jasinski-Bergner S, Müller U, Schulze B, Seliger B
  
• The armadillo protein p0071 is involved in Rab11-dependent recycling. (2014) J Cell Sci.
  René Keil, R. and M. Hatzfeld
  
• The role of microRNAs in the control of innate immune response in cancer. (2014) J Natl Cancer Inst.
  Jasinski-Bergner S, Mandelboim O, Seliger B
  
• The role of the oncofetal IGF2 mRNA-binding protein 3 (IGF2BP3) in cancer. (2014) Semin Cancer Biol.
  Lederer M, Bley N, Schleifer C, Hüttelmaier S
  
• (2015). VHL-dependent alterations in the secretome of renal cell carcinoma: Association with immune cell response? Oncotarget 6, 43420-43437
  Stehle, F., Leisz, S., Schulz, K., Schwurack, N., Weber, N., Massa, C., Kalich, J., Fahldieck, C., and Seliger, B.
  
• Automated assignment of MS/MS cleavable cross-links in protein 3D-structure analysis. (2015) Journal of the American Society for Mass Spectrometry
  Götze, M., Pettelkau, J., Fritzsche, R., Ihling, C.H., Schafer, M., and Sinz, A.
  
• Clinical relevance of miR-mediated HLA-G regulation and the associated immune cell infiltration in renal cell carcinoma. (2015) Oncoimmunology
  Jasinski-Bergner S, Stoehr C, Bukur J, Massa C, Braun J, Hüttelmaier S, Spath V, Wartenberg R, Legal W, Taubert H, Wach S, Wullich B, Hartmann A, Seliger B
  
• Clinical relevance of miR-mediated HLA-G regulation and the associated immune cell infiltration in renal cell carcinoma. (2015) Oncoimmunology
  Jasinski-Bergner S, Stoehr C, Bukur J, Massa C, Braun J, Hüttelmaier S, Spath V, Wartenberg R, Legal W, Taubert H, Wach S, Wullich B, Hartmann A, Seliger B
  
• Distinct von Hippel-Lindau gene and hypoxia-regulated alterations in gene and protein expression patterns of renal cell carcinoma and their effects on metabolism. (2015) Oncotarget
  Leisz, S., Schulz, K., Erb, S., Oefner, P., Dettmer, K., Mougiakakos, D., Wang, E., Marincola, F.M., Stehle, F., and Seliger, B.
  
• Homeologs of the Nicotiana benthamiana Antiviral ARGONAUTE1 Show Different Susceptibilities to microRNA168-Mediated Control. (2015) Plant Physiol
  Gursinsky, T., Pirovano, W., Gambino, G., Friedrich, S., Behrens, S.E., and Pantaleo, V.
  
• Homeologs of the Nicotiana benthamiana Antiviral ARGONAUTE1 Show Different Susceptibilities to microRNA168-Mediated Control. (2015) Plant Physiol
  Gursinsky, T., Pirovano, W., Gambino, G., Friedrich, S., Behrens, S.E., and Pantaleo, V.
  
• IGF2BP1 Harbors Prognostic Significance by Gene Gain and Diverse Expression in Neuroblastoma. (2015 ) J Clin Oncol.
  Bell JL, Turlapati R, Liu T, Schulte JH, Hüttelmaier S
  
• IGF2BP1 Harbors Prognostic Significance by Gene Gain and Diverse Expression in Neuroblastoma. (2015 ) J Clin Oncol.
  Bell JL, Turlapati R, Liu T, Schulte JH, Hüttelmaier S
  
• Mitochondrial poly(A) polymerase is involved in tRNA repair.(2015) Nucleic acids research
  Fiedler, M., Rossmanith, W., Wahle, E., and Rammelt, C.
  
• NF-kappaB/STAT5/miR-155 network targets PU.1 in FLT3-ITD-driven acute myeloid leukemia. (2015) Leukemia
  Gerloff, D., Grundler, R., Wurm, A.A., Brauer-Hartmann, D., Katzerke, C., Hartmann, J.U., Madan, V., Muller-Tidow, C., Duyster, J., Tenen, D.G., Niederwieser, D., and Behre, G.
  
• The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics. (2015) Proceedings of the National Academy of Sciences of the United States of America
  Elbaum-Garfinkle, S., Kim, Y., Szczepaniak, K., Chen, C.C., Eckmann, C.R., Myong, S., and Brangwynne, C.P.
  
• Translation activation maintains germline tissue homeostasis during adulthood. (2015) Worm
  Nousch M. and C.R. Eckmann
  
• WDR5 supports an N-Myc transcriptional complex that drives a pro-tumorigenic gene expression signature in neuroblastoma. (2015) Cancer Res.
  Sun Y, Bell JL, Carter DR, Gherardi S, Poulos RC, Milazzo G, Wong JW, Al-Awar R, Tee AE, Liu PY, Liu B, Atmadibrata B, Wong M, Trahair T, Zhao Q, Shohet JM, Haupt Y, Schulte JH, Brown PJ, Arrowsmith CH, Vedadi M, MacKenzie KL, Huttelmaier S, Perini G, Marshall GM, Braithwaite A, Liu T
  
• Activated mineralocorticoid receptor regulates micro-RNA-29b in vascular smooth muscle cells. (2016) FASEB J.
  Bretschneider M, Busch B, Mueller D, Nolze A, Schreier B, Gekle M, Grossmann C
  
• Activated mineralocorticoid receptor regulates micro-RNA-29b in vascular smooth muscle cells. (2016) FASEB journal
  Bretschneider, M., Busch, B., Mueller, D., Nolze, A., Schreier, B., Gekle, M., and Grossmann, C.
  
• Arginine methylation enhances the RNA chaperone activity of the West Nile virus host factor AUF1 p45. (2016) RNA
  Friedrich, S., Schmidt, T., Schierhorn, A., Lilie, H., Szczepankiewicz, G., Bergs, S., Liebert, U.G., Golbik, R.P., and Behrens, S.E.
  
• Coordinated Action of Two Double-Stranded RNA Binding Motifs and an RGG Motif Enables Nuclear Factor 90 To Flexibly Target Different RNA Substrates. (2016) Biochemistry
  Schmidt, T., Knick, P., Lilie, H., Friedrich, S., Golbik, R.P., and Behrens, S.E.
  
• Correction: GLD-4-Mediated Translational Activation Regulates the Size of the Proliferative Germ Cell Pool in the Adult C. elegans Germ Line. (2016) PLoS genetics
  Millonigg, S., Minasaki, R., Nousch, M., Novak, J., and Eckmann, C.R.
  
• Growth Retardation, Loss of Desmosomal Adhesion, and Impaired Tight Junction Function Identify a Unique Role of Plakophilin 1 In Vivo. (2016) J Invest Dermatol.
  Rietscher, K., A. Wolf, G. Hause, A. Rother, R. Keil, T.M. Magin, M. Glass, C.M. Niessen, and M. Hatzfeld
  
• HLA-E expression and its clinical relevance in human renal cell carcinoma. (2016) Oncotarget
  Seliger B, Jasinski-Bergner S, Quandt D, Stoehr C, Bukur J, Wach S, Legal W, Taubert H, Wullich B, Hartmann A
  
• Hypoxia-mediated alterations and their role in the HER-2/neuregulated CREB status and localization. (2016) Oncotarget
  Steven, A., Leisz, S., Sychra, K., Hiebl, B., Wickenhauser, C., Mougiakakos, D., Kiessling, R., Denkert, C., and Seliger, B.
  
• Identification of novel microRNAs regulating HLA-G expression and investigating their clinical relevance in renal cell carcinoma. (2016) Oncotarget
  Jasinski-Bergner S, Reches A, Stoehr C, Massa C, Gonschorek E, Huettelmaier S, Braun J, Wach S, Wullich B, Spath V, Wang E, Marincola FM, Mandelboim O, Hartmann A, Seliger B
  
• Identification of novel microRNAs regulating HLA-G expression and investigating their clinical relevance in renal cell carcinoma. (2016) Oncotarget
  Jasinski-Bergner S, Reches A, Stoehr C, Massa C, Gonschorek E, Huettelmaier S, Braun J, Wach S, Wullich B, Spath V, Wang E, Marincola FM, Mandelboim O, Hartmann A, Seliger B
  
• Integrated Workflow for Structural Proteomics Studies Based on Cross-Linking/Mass Spectrometry with an MS/MS Cleavable Cross-Linker. (2016) Anal Chem
  Arlt, C., Götze, M., Ihling, C.H., Hage, C., Schafer, M., and Sinz, A.
  
• Latent Cytomegalovirus Infection in Rheumatoid Arthritis and Increased Frequencies of Cytolytic LIR-1+CD8+ T Cells. (2016 ) Arthritis Rheumatol.
  Rothe K, Quandt D, Schubert K, Rossol M, Klingner M, Jasinski-Bergner S, Scholz R, Seliger B, Pierer M, Baerwald C, Wagner U.
  
• Oligoadenylation of 3' decay intermediates promotes cytoplasmic mRNA degradation in Drosophila cells. (2016) RNA
  Harnisch, C., Cuzic-Feltens, S., Dohm, J.C., Götze, M., Himmelbauer, H., and Wahle, E.
  
• Polar Positioning of Phase-Separated Liquid Compartments in Cells Regulated by an mRNA Competition Mechanism. (2016) Cell
  Saha S., Weber C.A., Nousch M., Adame-Arana O., Hoege C., Hein M.Y., Osborne-Nishimura E., Mahamid J., Jahnel M., Jawerth L., Pozniakovski A., Eckmann C.R., Jülicher F. & A.A. Hyman
  
• Redox proteomics: Methods for the identification and enrichment of redox-modified proteins and their applications. (2016) Proteomics
  Lennicke, C., Rahn, J., Heimer, N., Lichtenfels, R., Wessjohann, L. A., & Seliger, B.
  
• The oncogenic triangle of HMGA2, LIN28B and IGF2BP1 antagonizes tumor-suppressive actions of the let-7 family. (2016) Nucleic Acids Res.
  Busch B, Bley N, Müller S, Glaß M, Misiak D, Lederer M, Vetter M, Strauß HG, Thomssen C, Hüttelmaier S
  
• The oncogenic triangle of HMGA2, LIN28B and IGF2BP1 antagonizes tumor-suppressive actions of the let-7 family. (2016) Nucleic Acids Res.
  Busch B, Bley N, Müller S, Glaß M, Misiak D, Lederer M, Vetter M, Strauß HG, Thomssen C, Hüttelmaier S
  
• UNR/CSDE1 Drives a Post-transcriptional Program to Promote Melanoma Invasion and Metastasis. (2016) Cancer Cell
  Wurth L, Papasaikas P, Olmeda D, Bley N, Calvo GT, Guerrero S, Cerezo-Wallis D, Martinez-Useros J, García-Fernández M, Hüttelmaier S, Soengas MS, Gebauer F
  
• ABR, a novel inducer of transcription factor C/EBPalpha, contributes to myeloid differentiation and is a favorable prognostic factor in acute myeloid leukemia. (2017) Oncotarget
  Namasu, C.Y., Katzerke, C., Brauer-Hartmann, D., Wurm, A.A., Gerloff, D., Hartmann, J.U., Schwind, S., Muller-Tidow, C., Hilger, N., Fricke, S., Christopeit, M., Niederwieser, D., and Behre, G.
  
• Dissociation Behavior of a TEMPO-Active Ester Cross-Linker for Peptide Structure Analysis by Free Radical Initiated Peptide Sequencing (FRIPS) in Negative ESI-MS. (2017) Journal of the American Society for Mass Spectrometry
  Hage, C., Ihling, C.H., Götze, M., Schafer, M., and Sinz, A.
  
• Polyadenylation is the key aspect of GLD-2 function in C. elegans. (2017) RNA
  Nousch M, Minasaki R, Eckmann CR
  
• RNA-Binding Protein Musashi1 Is a Central Regulator of Adhesion Pathways in Glioblastoma. (2017) MCB
  Philip J. Uren, Dat T. Vo, Patricia Rosa de Araujo, Rebecca Pötschke, Suzanne C. Burns, Emad Bahrami-Samani, Mei Qiao, Raquel de Sousa Abreu, Helder I. Nakaya, Bruna R. Correa, Caspar Kühnöl, Jernej Ule, Jennifer L. Martindale, Kotb Abdelmohsen, Myriam Gorospe, Andrew D. Smith, Luiz O. F. Penalva
  
• The properties of the RNA-binding protein NF90 are considerably modulated by complex formation with NF45. (2017) Biochem J
  Schmidt, T., Knick, P., Lilie, H., Friedrich, S., Golbik, R.P., and Behrens, S.E.
  
• Translational repression of the Drosophila nanos mRNA involves the RNA helicase Belle and RNA coating by Me31B and Trailer hitch. (2017) RNA
  Götze, M., Dufourt, J., Ihling, C., Rammelt, C., Pierson, S., Sambrani, N., Temme, C., Sinz, A., Simonelig, M., and Wahle, E.
  
• (2018). Identification of a novel lncRNA induced by the nephrotoxin ochratoxin A and expressed in human renal tumor tissue. Cellular and molecular life sciences
  Polovic, M., Dittmar, S., Hennemeier, I., Humpf, H.U., Seliger, B., Fornara, P., Theil, G., Azinovic, P., Nolze, A., Kohn, M., Schwerdt, G., and Gekle, M.
  
• 14-3-3 proteins regulate desmosomal adhesion via plakophilins. (2018) J Cell Sci.
  Rietscher, K., R. Keil, A. Jordan, and M. Hatzfeld
  
• A conserved motif promotes HpaB-regulated export of type III effectors from Xanthomonas. (2018) Mol. Plant Pathol.
  Prochaska, H., Thieme, S., Daum, S., Grau, J., Schmidtke, C., Hallensleben, M., John, P., Bacia, K. and Bonas, U.
  
• A cross-linking/mass spectrometry workflow based on MS-cleavable cross-linkers and the MeroX software for studying protein structures and proteinprotein interactions. (2018) Nat Protoc
  Iacobucci, C., Götze, M., Ihling, C.H., Piotrowski, C., Arlt, C., Schafer, M., Hage, C., Schmidt, R., and Sinz, A.
  
• A viral suppressor modulates the plant immune response early in infection by regulating microRNA activity. (2018) American Society for Microbiology
  Pertermann R, Tamilarasan S, Gursinsky T, Gambino G, Schuck J, Weinholdt C, Lilie H, Grosse I, Golbik RP, Pantaleo V and Behrens SE
  
• Characterization of the Interaction between Arginine Methyltransferase Hmt1 and Its Substrate Npl3: Use of Multiple Cross-Linkers, Mass Spectrometric Approaches, and Software Platforms. (2018) Anal Chem
  Smith, D.L., Gotze, M., Bartolec, T.K., Hart-Smith, G., and Wilkins, M.R.
  
• IGF2BP1 enhances an aggressive tumor cell phenotype by impairing miRNA-directed downregulation of oncogenic factors. (2018 Jul) Nucleic Acids Res.
  Müller S, Bley N, Glaß M, Busch B, Rousseau V, Misiak D, Fuchs T, Lederer M, Hüttelmaier S
  
• IGF2BP1 enhances an aggressive tumor cell phenotype by impairing miRNA-directed downregulation of oncogenic factors. (2018 Jul) Nucleic Acids Res.
  Müller S, Bley N, Glaß M, Busch B, Rousseau V, Misiak D, Fuchs T, Lederer M, Hüttelmaier S
  
• IGF2BP1 promotes SRF-dependent transcription in cancer in a m6A- and miRNA-dependent manner. (2018 Oct ) Nucleic Acids Res.
  Müller S, Glaß M, Singh AK, Haase J, Bley N, Fuchs T, Lederer M, Dahl A, Huang H, Chen J, Posern G, Hüttelmaier S
  
• IGF2BP1 promotes SRF-dependent transcription in cancer in a m6A- and miRNA-dependent manner. (2018 Oct ) Nucleic Acids Res.
  Müller S, Glaß M, Singh AK, Haase J, Bley N, Fuchs T, Lederer M, Dahl A, Huang H, Chen J, Posern G, Hüttelmaier S
  
• Large-scale identification of functional microRNA targeting reveals cooperative regulation of the hemostatic system. (2018) J Thromb Haemost.
  Nourse J, Braun J, Lackner K, Hüttelmaier S, Danckwardt S
  
• MAPK signaling couples SCF-mediated degradation of translational regulators to oocyte meiotic progression. (2018) PNAS
  Kisielnicka E, Minasaki R, Eckmann CR
  
• Reconstitution of mammalian Cleavage Factor II involved in 3' processing of mRNA precursors. (2018) RNA
  Schäfer, P., Schönemann, L., Kühn, U., Treiber, T., Treiber, N., Ihling, C., Graber, A., Keller, W., Meister, G., Sinz, A., Wahle, E.
  
• Reconstitution of mammalian cleavage factor II involved in 3ʹ processing of mRNA precursors. (2018) RNA
  Schäfer, P., Tüting, C., Schönemann, L., Kühn, U., Treiber, T., Treiber, N., Ihling, C., Graber, A., Meister, G., Sinz, A. & Wahle, E..
  
• The Host Factor AUF1 p45 Supports Flavivirus Propagation by Triggering the RNA Switch Required for Viral Genome Cyclization. (2018) J Virol
  Friedrich, S., Engelmann, S., Schmidt, T., Szczepankiewicz, G., Bergs, S., Liebert, U.G., Kümmerer B., Golbik, R.P., and Behrens, S.E.
  
• The p.S85C-mutation in MATR3 impairs stress granule formation in Matrin-3 myopathy. (2018) Exp Neurol.
  Mensch A, Meinhardt B, Bley N, Hüttelmaier S, Schneider I, Stoltenburg-Didinger G, Kraya T, Müller T, Zierz S
  
• The p.S85C-mutation in MATR3 impairs stress granule formation in Matrin-3 myopathy. (2018) Exp Neurol.
  Mensch A, Meinhardt B, Bley N, Hüttelmaier S, Schneider I, Stoltenburg-Didinger G, Kraya T, Müller T, Zierz S
  
• “Carboxyl-photo-reactive ms-cleavable cross-linkers: unveiling a hidden aspect of diazirine-based reagents”, (2018) Analytical Chemistry
  Iacobucci, Claudio, Götze, Michael, Piotrowski, Christine, Arlt, Christian, Rehkamp, Anne, Ihling, Christian, Hage, Christoph, Sinz, Andrea
  
• “Cross-linking/Mass Spectrometry: A Community-Wide, Comparative Study Towards Establishing Best Practice Guidelines”, (2018) BioRxiv
  Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukačka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, Moritz RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O'Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A
  
• "A Simple Cross-Linking/Mass Spectrometry Workflow to Study System-Wide Protein Interactions" (2019) Anal Chem.
  Götze M., Iacobucci C., Ihling C. and Sinz A.
  
• Combinatorial recognition of clustered RNA elements by the multidomain RNA-binding protein IMP3. (2019) Nat Commun.
  Schneider T, Hung LH, Aziz M, Wilmen A, Thaum S, Wagner J, Janowski R, Müller S, Schreiner S, Friedhoff P, Hüttelmaier S, Niessing D, Sattler M, Schlundt A, Bindereif A
  
• Identification of immune modulatory miRNAs by miRNA enrichment via RNA Affinity Purification. (2019) Methods Mol Biol.
  Tretbar U.S., Friedrich M., Lazaridou M.F., Seliger, B.
  
• miR-221 and -222 target Cacna1c and Kcnj5 leading to altered cardiac ion channel expression and current density. (2019) Cellular and Molecular Life Sciences
  Stephanie Binas, Maria Knyrim, Julia Hupfeld, Udo Kloeckner, Sindy Rabe, Sigrid Mildenberger, Katja Quarch, Nicole Strätz, Danny Misiak, Michael Gekle, Claudia Grossmann, Barbara Schreier
  
• TGF-beta inducible epithelial-to-mesenchymal transition in renal cell carcinoma. (2019) Oncotarget
  Tretbar, S., Krausbeck, P., Muller, A., Friedrich, M., Vaxevanis, C., Bukur, J., Jasinski-Bergner, S., and Seliger, B.
  
• The RGG/RG motif of AUF1 isoform p45 is a key modulator of the protein’s RNA chaperone and RNA annealing activities, (2019) RNA Biology
  Alexandra Meyer, Ralph P. Golbik, Lennart Sänger, Tobias Schmidt, Sven-Erik Behrens & Susann Friedrich
  
• The RGG/RG motif of AUF1 isoform p45 is a key modulator of the protein’s RNA chaperone and RNA annealing activities. (2019) RNA Biol.
  Meyer, A., Golbik, R.P., Sänger, L., Schmidt, T., Behrens, S.E., and Friedrich, S.