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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 
  • 2023 Journal Article
    ​ ​Proteomic analysis of the human hippocampus identifies neuronal pentraxin 1 ( NPTX1 ) as synapto‐axonal target in late‐stage Parkinson's disease​
    Warth Perez Arias, C. C.; Silbern, I.; Caldi Gomes, L.; Wartmann, H.; Dambeck, V.; Fanz, J. & Neuenroth, L. et al.​ (2023) 
    Journal of Neurochemistry166(5) pp. 862​-874​.​ DOI: https://doi.org/10.1111/jnc.15924 
    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 
  • 2022 Journal Article
    ​ ​ERR2 and ERR3 promote the development of gamma motor neuron functional properties required for proprioceptive movement control​
    Khan, M. N.; Cherukuri, P.; Negro, F.; Rajput, A.; Fabrowski, P.; Bansal, V. & Lancelin, C. et al.​ (2022) 
    PLoS Biology20(12) art. e3001923​.​ DOI: https://doi.org/10.1371/journal.pbio.3001923 
    Details  DOI  PMID  PMC 
  • 2021 Book Chapter
    ​ ​Management of Metadata Types in Basic Cardiological Research​
    Kusch, H. ; Kossen, R. ; Suhr, M.; Freckmann, L.; Weber, L.; Henke, C.& Lehmann, C. et al.​ (2021)
    In:​Röhrig, Rainer; Beißbarth, Tim; König, Jochem; Ose, Claudia; Rauch, Geraldine; Sax, Ulrich; Schreiweis, Björn, et al.​ (Eds.), German Medical Data Sciences 2021: Digital Medicine: Recognize – Understand – Heal pp. 59​-68.  DOI: https://doi.org/10.3233/SHTI210542 
    Details  DOI  PMID  PMC 
  • 2021 Journal Article | Research Paper | 
    ​ ​Hippocampal neurons respond to brain activity with functional hypoxia​
    Butt, U. J.; Steixner-Kumar, A. A.; Depp, C.; Sun, T.; Hassouna, I.; Wüstefeld, L. & Arinrad, S. et al.​ (2021) 
    Molecular Psychiatry26(6) pp. 1790​-1807​.​ DOI: https://doi.org/10.1038/s41380-020-00988-w 
    Details  DOI  PMID  PMC 
  • 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 Immunology6(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) 
    GigaScience10(9).​ DOI: https://doi.org/10.1093/gigascience/giab064 
    Details  DOI  PMID  PMC 
  • 2021 Research Data
    ​ ​GMDS2021 ePoster and video teaser for DOI 10.3205/21gmds072​
    Kusch, H. ; Bauer, C. R.; Bender, T.; Hügel, J. ; Kossen, R. ; Nußbeck, S. Y.& Sax, U. ​ (2021)
    ​GRO.data. DOI: https://doi.org/10.25625/8vukqa 
    Details  DOI 
  • 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 Proteomics20 pp. 100061​.​ DOI: https://doi.org/10.1016/j.mcpro.2021.100061 
    Details  DOI  PMID  PMC 
  • 2020 Journal Article | Research Paper | 
    ​ ​A comparative analysis of the mobility of 45 proteins in the synaptic bouton​
    Reshetniak, S.; Ußling, J.; Perego, E.; Rammner, B.; Schikorski, T.; Fornasiero, E. F.   & Truckenbrodt, S. et al.​ (2020) 
    The EMBO Journal39(16) art. e104596​.​ DOI: https://doi.org/10.15252/embj.2020104596 
    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. Neurology19(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 Advances6(30) pp. eaba2619​.​ DOI: https://doi.org/10.1126/sciadv.aba2619 
    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 Communications11(1).​ DOI: https://doi.org/10.1038/s41467-019-14018-z 
    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 Neurochemistry154(6) pp. 647​-661​.​ DOI: https://doi.org/10.1111/jnc.15008 
    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 Biology27(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 | 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 Biology17(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 Advances5(12) pp. eaay2670​.​ DOI: https://doi.org/10.1126/sciadv.aay2670 
    Details  DOI  PMID  PMC 


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