Prof. Dr. Stefan Bonn

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  • 2023 | Journal Article | 
    ​ ​Expansion-enhanced super-resolution radial fluctuations enable nanoscale molecular profiling of pathology specimens​
    Kylies, D.; Zimmermann, M.; Haas, F.; Schwerk, M.; Kuehl, M.; Brehler, M. & Czogalla, J. et al.​ (2023) 
    Nature Nanotechnology,.​ DOI: https://doi.org/10.1038/s41565-023-01328-z 
    ​Details  DOI  PMID  PMC 
  • 2022 | Preprint
    ​ ​DiSCERN - Deep Single Cell Expression ReconstructioN for improved cell clustering and cell subtype and state detection​
    Hausmann, F.; Ergen-Behr, C.; Khatri, R.; Marouf, M.; Hänzelmann, S.; Gagliani, N.& Huber, S. et al.​ (2022). DOI: https://doi.org/10.1101/2022.03.09.483600 
    ​Details  DOI 
  • 2021 | Journal Article | Research Paper | 
    ​ ​Clonal expansion and activation of tissue-resident memory-like Th17 cells expressing GM-CSF in the lungs of severe COVID-19 patients​
    Zhao, Y.; Kilian, C.; Turner, J.-E.; Bosurgi, L.; Roedl, K.; Bartsch, P. & Gnirck, A.-C. et al.​ (2021) 
    Science Immunology, 6(56).​ DOI: https://doi.org/10.1126/sciimmunol.abf6692 
    ​Details  DOI  PMID  PMC 
  • 2021 | Journal Article | Research Paper | 
    ​ ​Bias-invariant RNA-sequencing metadata annotation​
    Wartmann, H.; Heins, S.; Kloiber, K. & Bonn, S. ​ (2021) 
    GigaScience, 10(9).​ DOI: https://doi.org/10.1093/gigascience/giab064 
    ​Details  DOI  PMID  PMC 
  • 2021 | Journal Article | Research Paper | 
    ​ ​Protein Phosphorylation in Depolarized Synaptosomes: Dissecting Primary Effects of Calcium from Synaptic Vesicle Cycling​
    Silbern, I.; Pan, K.-T.; Fiosins, M.; Bonn, S. ; Rizzoli, S. O. ; Fornasiero, E. F.   & Urlaub, H.  et al.​ (2021) 
    Molecular & Cellular Proteomics, 20 pp. 100061​.​ DOI: https://doi.org/10.1016/j.mcpro.2021.100061 
    ​Details  DOI  PMID  PMC 
  • 2020 | Journal Article | Research Paper
    ​ ​Neuropathology of patients with COVID-19 in Germany: a post-mortem case series​
    Matschke, J.; Lütgehetmann, M.; Hagel, C.; Sperhake, J. P; Schröder, A. S.; Edler, C. & Mushumba, H. et al.​ (2020) 
    The Lancet. Neurology, 19(11) pp. 919​-929​.​ DOI: https://doi.org/10.1016/S1474-4422(20)30308-2 
    ​Details  DOI 
  • 2020 | Journal Article | Research Paper | 
    ​ ​Deep learning–based cell composition analysis from tissue expression profiles​
    Menden, K.; Marouf, M.; Oller, S.; Dalmia, A.; Magruder, D. S.; Kloiber, K. & Heutink, P. et al.​ (2020) 
    Science Advances, 6(30) pp. eaba2619​.​ DOI: https://doi.org/10.1126/sciadv.aba2619 
    ​Details  DOI  PMID  PMC 
  • 2020 | Journal Article | Research Paper | 
    ​ ​SUMOylation controls the neurodevelopmental function of the transcription factor Zbtb20​
    Ripamonti, S.; Shomroni, O. ; Rhee, J. S. ; Chowdhury, K.; Jahn, O. ; Hellmann, K. P. & Bonn, S.  et al.​ (2020) 
    Journal of Neurochemistry, 154(6) pp. 647​-661​.​ DOI: https://doi.org/10.1111/jnc.15008 
    ​Details  DOI  PMID  PMC 
  • 2020 | Journal Article | Research Paper | 
    ​ ​CRISPLD1: a novel conserved target in the transition to human heart failure​
    Khadjeh, S. ; Hindmarsh, V.; Weber, F.; Cyganek, L. ; Vidal, R. O. ; Torkieh, S. & Streckfuss-Bömeke, K.  et al.​ (2020) 
    Basic Research in Cardiology, 115(3).​ DOI: https://doi.org/10.1007/s00395-020-0784-4 
    ​Details  DOI  PMID  PMC 
  • 2020 | Journal Article | Research Paper | 
    ​ ​Realistic in silico generation and augmentation of single-cell RNA-seq data using generative adversarial networks​
    Marouf, M.; Machart, P.; Bansal, V.; Kilian, C.; Magruder, D. S.; Krebs, C. F. & Bonn, S. ​ (2020) 
    Nature Communications, 11(1).​ DOI: https://doi.org/10.1038/s41467-019-14018-z 
    ​Details  DOI  PMID  PMC 
  • 2019 | Journal Article | Research Paper
    ​ ​Explainable Deep Learning for Augmentation of Small RNA Expression Profiles​
    Fiosina, J.; Fiosins, M. & Bonn, S. ​ (2019) 
    Journal of Computational Biology, 27(2) pp. 234​-247​.​ DOI: https://doi.org/10.1089/cmb.2019.0320 
    ​Details  DOI  PMID  PMC 
  • 2019 | Conference Paper
    ​ ​Deep Learning and Random Forest-Based Augmentation of sRNA Expression Profiles​
    Fiosina, J.; Fiosins, M. & Bonn, S. ​ (2019)
    In:Cai, Zhipeng; Skums, Pavel; Li, Min​ (Eds.), ​Bioinformatics Research and Applications pp. 159​-170. ​15th International Symposium, ISBRA 2019​, Barcelona, Spain.
    Springer. DOI: https://doi.org/10.1007/978-3-030-20242-2_14 
    ​Details  DOI 
  • 2019 | Preprint
    ​ ​Deep-learning-based cell composition analysis from tissue expression profiles​
    Menden, K.; Marouf, M.; Oller, S.; Dalmia, A.; Kloiber, K.; Heutink, P.& Bonn, S. ​ (2019). DOI: https://doi.org/10.1101/659227 
    ​Details  DOI 
  • 2019 | Preprint
    ​ ​Explainable Deep Learning for Augmentation of sRNA Expression Profiles​
    Fiosina, J.; Fiosins, M.& Bonn, S. ​ (2019)
    ​Details  arXiv 
  • 2019 | Journal Article
    ​ ​SEAweb: the small RNA Expression Atlas web application​
    Rahman, R.-U. ; Liebhoff, A.-M.; Bansal, V.; Fiosins, M.; Rajput, A. ; Sattar, A. & Magruder, D. S et al.​ (2019) 
    Nucleic Acids Research, 48(D1) pp. D204​-D219​.​ DOI: https://doi.org/10.1093/nar/gkz869 
    ​Details  DOI 
  • 2019 | Journal Article | Research Paper | 
    ​ ​Tagger-A Swiss army knife for multiomics to dissect cell type-specific mechanisms of gene expression in mice​
    Kaczmarczyk, L.; Bansal, V.; Rajput, A.; Rahman, R.-U.; Krzyżak, W.; Degen, J. & Poll, S. et al.​ (2019) 
    PLoS Biology, 17(8) art. e3000374​.​ DOI: https://doi.org/10.1371/journal.pbio.3000374 
    ​Details  DOI  PMID  PMC 
  • 2019 | Journal Article | Research Paper | 
    ​ ​The long noncoding RNA neuroLNC regulates presynaptic activity by interacting with the neurodegeneration-associated protein TDP-43​
    Keihani, S.; Kluever, V.; Mandad, S. ; Bansal, V.; Rahman, R. ; Fritsch, E. & Gomes, L. C. et al.​ (2019) 
    Science Advances, 5(12) pp. eaay2670​.​ DOI: https://doi.org/10.1126/sciadv.aay2670 
    ​Details  DOI  PMID  PMC 
  • 2018 | Journal Article
    ​ ​Chromatin Remodeling BAF155 Subunit Regulates the Genesis of Basal Progenitors in Developing Cortex​
    Narayanan, R.; Pham, L.; Kerimoglu, C. ; Watanabe, T. ; Castro Hernandez, R.; Sokpor, G.   & Ulmke, P. A. et al.​ (2018) 
    iScience, 4 pp. 109​-126​.​ DOI: https://doi.org/10.1016/j.isci.2018.05.014 
    ​Details  DOI 
  • 2018 | Journal Article | 
    ​ ​Regional and subtype-dependent miRNA signatures in sporadic Creutzfeldt-Jakob disease are accompanied by alterations in miRNA silencing machinery and biogenesis​
    Llorens, F. ; Thüne, K. ; Martí, E.; Kanata, E.; Dafou, D.; Díaz-Lucena, D. & Vivancos, A. et al.​ (2018) 
    PLOS Pathogens, 14(1) art. e1006802​.​ DOI: https://doi.org/10.1371/journal.ppat.1006802 
    ​Details  DOI 
  • 2018 | Journal Article | 
    ​ ​Genome-wide association study results for educational attainment aid in identifying genetic heterogeneity of schizophrenia​
    Bansal, V.; Mitjans, M.; Burik, C. A. P.; Linnér, R. K.; Okbay, A.; Rietveld, C. A. & Begemann, M.  et al.​ (2018) 
    Nature Communications, 9(1).​ DOI: https://doi.org/10.1038/s41467-018-05510-z 
    ​Details  DOI 
  • 2018 | Journal Article | 
    ​ ​Targeting myelin lipid metabolism as a potential therapeutic strategy in a model of CMT1A neuropathy​
    Fledrich, R. ; Abdelaal, T.; Rasch, L.; Bansal, V.; Schütza, V.; Brügger, B. & Lüchtenborg, C. et al.​ (2018) 
    Nature Communications, 9(1).​ DOI: https://doi.org/10.1038/s41467-018-05420-0 
    ​Details  DOI 
  • 2018 | Journal Article | Research Paper | 
    ​ ​Violent aggression predicted by multiple pre-adult environmental hits​
    Mitjans, M.; Seidel, J.; Begemann, M. ; Bockhop, F.; Moya-Higueras, J.; Bansal, V. & Wesolowski, J. et al.​ (2018) 
    Molecular psychiatry, pp. 1​-16​.​ DOI: https://doi.org/10.1038/s41380-018-0043-3 
    ​Details  DOI  PMID  PMC 
  • 2018 | Journal Article | 
    ​ ​OTTO: a new strategy to extract mental disease-relevant combinations of GWAS hits from individuals​
    Ehrenreich, H. ; Mitjans, M.; Van der Auwera, S.; Centeno, T. P. ; Begemann, M. ; Grabe, H.-J. & Bonn, S.  et al.​ (2018) 
    Molecular Psychiatry, 23 pp. 476​-486​.​ DOI: https://doi.org/10.1038/mp.2016.208 
    ​Details  DOI  PMID  PMC 
  • 2017 | Journal Article | 
    ​ ​Altered Ca2+ homeostasis induces Calpain-Cathepsin axis activation in sporadic Creutzfeldt-Jakob disease​
    Llorens, F. ; Fischer, A. ; Thüne, K. ; Sikorska, B.; Schmitz, M.; Tahir, W.   & Fernández-Borges, N. et al.​ (2017) 
    Acta Neuropathologica Communication, 5(35) pp. 1​-20​.​ DOI: https://doi.org/10.1186/s40478-017-0431-y 
    ​Details  DOI  PMID  PMC 
  • 2017 | Journal Article
    ​ ​Sodium butyrate rescues dopaminergic cells from alpha-synuclein-induced transcriptional deregulation and DNA damage​
    Paiva, I. ; Pinho, R. ; Pavlou, M. A. ; Hennion, M. ; Wales, P. ; Schütz, A.-L.   & Rajput, A.  et al.​ (2017) 
    Human Molecular Genetics, 26(12) pp. 2231​-2246​.​ DOI: https://doi.org/10.1093/hmg/ddx114 
    ​Details  DOI 
  • 2017 | Journal Article | Research Paper | 
    ​ ​Severe DCM phenotype of patient harboring RBM20 mutation S635A can be modeled by patient-specific induced pluripotent stem cell-derived cardiomyocytes​
    Streckfuss-Bömeke, K. ; Tiburcy, M. ; Fomin, A.; Luo, X.; Li, W.; Fischer, C. & Özcelik, C. et al.​ (2017) 
    Journal of Molecular and Cellular Cardiology, 113 pp. 9​-21​.​ DOI: https://doi.org/10.1016/j.yjmcc.2017.09.008 
    ​Details  DOI  PMID  PMC 
  • 2017 | Journal Article
    ​ ​The landscape of human mutually exclusive splicing​
    Hatje, K.; Rahman, R.-U. ; Vidal, R. O. ; Simm, D. ; Hammesfahr, B.; Bansal, V. & Rajput, A.  et al.​ (2017) 
    Molecular systems biology, 13(12) art. 959​.​ DOI: https://doi.org/10.15252/msb.20177728 
    ​Details  DOI  PMID  PMC 
  • 2016 | Journal Article | 
    ​ ​Endophilin-A Deficiency Induces the Foxo3a-Fbxo32 Network in the Brain and Causes Dysregulation of Autophagy and the Ubiquitin-Proteasome System​
    Murdoch, J. ; Rostosky, C. ; Gowrisankaran, S.; Arora, A. ; Soukup, S.-F.; Vidal, R.   & Capece, V.  et al.​ (2016) 
    Cell Reports, 17(4) pp. 1071​-1086​.​ DOI: https://doi.org/10.1016/j.celrep.2016.09.058 
    ​Details  DOI 
  • 2016 | Journal Article | 
    ​ ​Genome-wide chromatin and gene expression profiling during memory formation and maintenance in adult mice​
    Centeno, T. P. ; Shomroni, O. ; Hennion, M. ; Halder, R. ; Vidal, R. ; Rahman, R.-U.   & Bonn, S. ​ (2016) 
    Scientific Data, 3 art. 160090​.​ DOI: https://doi.org/10.1038/sdata.2016.90 
    ​Details  DOI 
  • 2016 | Journal Article
    ​ ​DNA methylation changes in plasticity genes accompany the formation and maintenance of memory​
    Halder, R. ; Hennion, M. ; Vidal, R. O. ; Shomroni, O. ; Rahman, R.-U. ; Rajput, A.   & Centeno, T. P.  et al.​ (2016) 
    Nature Neuroscience, 19(1) pp. 102​-110​.​ DOI: https://doi.org/10.1038/nn.4194 
    ​Details  DOI  PMID  PMC 
  • 2015 | Journal Article | Research Paper
    ​ ​HDAC inhibitor-dependent transcriptome and memory reinstatement in cognitive decline models​
    Benito-Garagorri, E.; Urbanke, H. ; Ramachandran, B. ; Barth, J. ; Haider, R.; Awasthi, A.   & Jain, G. et al.​ (2015) 
    Journal of Clinical Investigation, 125(9) pp. 3572​-3584​.​ DOI: https://doi.org/10.1172/JCI79942 
    ​Details  DOI  PMID  PMC  WoS 
  • 2015 | Journal Article | Research Paper
    ​ ​Oasis: online analysis of small RNA deep sequencing data​
    Capece, V. ; Vizcaino, J. C. G. ; Vidal, R. ; Rahman, R.-U. ; Centeno, T. P. ; Shomroni, O.   & Suberviola, I. et al.​ (2015) 
    Bioinformatics, 31(13) pp. 2205​-2207​.​ DOI: https://doi.org/10.1093/bioinformatics/btv113 
    ​Details  DOI  PMID  PMC  WoS 
  • 2014 | Journal Article | Research Paper | 
    ​ ​De-regulation of gene expression and alternative splicing affects distinct cellular pathways in the aging hippocampus​
    Stilling, R. M.; Benito-Garagorri, E.; Gertig, M.; Barth, J. ; Capece, V. ; Burkhardt, S.   & Bonn, S.  et al.​ (2014) 
    Frontiers in Cellular Neuroscience, 8 art. 373​.​ DOI: https://doi.org/10.3389/fncel.2014.00373 
    ​Details  DOI  PMID  PMC  WoS 
  • 2014 | Journal Article | Research Paper
    ​ ​K-Lysine acetyltransferase 2a regulates a hippocampal gene expression network linked to memory formation​
    Stilling, R. M.; Roenicke, R.; Benito-Garagorri, E.; Urbanke, H. ; Capece, V. ; Burkhardt, S.   & Bahari-Javan, S.  et al.​ (2014) 
    EMBO Journal, 33(17) pp. 1912​-1927​.​ DOI: https://doi.org/10.15252/embj.201487870 
    ​Details  DOI  PMID  PMC  WoS 
  • 2007 | Conference Paper
    ​ ​Möglichkeiten der Diversifizierung von Grasland durch Endozoochorie​
    Hofmann, M.; Langholz, H.; Bonn, S.   & Isselstein, J. ​ (2007)
    In:Wrage, N.; Isselstein, J.​ (Eds.), ​Neue Funktionen des Grünlands: Ökosystem, Energie, Erholung pp. 250​-253. ​51. Jahrestagung der AGGF​, Göttingen.
    Arbeitsgemeinschaft Grünland und Futterbau der Gesellschaft für Pflanzenbauwissenschaften e. V..
    ​Details 
  • 2005 | Conference Paper
    ​ ​The effect of sheep grazing at two stocking rates on the seedling recruitment of grassland forbs​
    Isselstein, J. ; Kowarsch, N.; Bonn, S.   & Hofmann, M.​ (2005)
    In:O'Mara, F. P.; Wilkins, R. J.; 't Mannetje, L.; Lovett, D. K.; Rogers, P. A. M.; Boland, T. M.​ (Eds.), ​XX International Grassland Congress: Offered papers p. 625. ​XX International Grassland Congress​, Dublin, Ireland.
    Wageningen​: Wageningen Academic Publishers.
    ​Details 
  • 2001 | Conference Paper
    ​ ​The effect of grassland management and sward disturbance on seedling emergence and establishment of wild flower species​
    Kowarsch, N.; Bonn, S. ; Hofmann, M. & Isselstein, J. ​ (2001)
    In:Isselstein, Johannes​ (Ed.), ​Organic grassland farming pp. 186​-189. ​Proceedings of the international occasional symposium of the European Grassland Federation​, Witzenhausen, Germany.
    Duderstadt​: Mecke.
    ​Details 
  • 2001 | Conference Paper
    ​ ​Management for biodiversity and consequences for grassland productivity​
    Hofmann, M.; Kowarsch, N. & Bonn, S. ​ (2001)
    In:Isselstein, Johannes​ (Ed.), ​Organic grassland farming pp. 113​-116. ​Proceedings of the international occasional symposium of the European Grassland Federation​, Witzenhausen, Germany.
    Duderstadt​: Mecke.
    ​Details 

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