Institute of Biological and Chemical Systems - Biological Information Processing

Publications 2021

  1. A stochastic oscillator model simulates the entrainment of vertebrate cellular clocks by light.
    Kumpošt, V.; Vallone, D.; Gondi, S. B.; Foulkes, N. S.; Mikut, R.; Hilbert, L.
    2021. Scientific reports, 11 (1), Art.-Nr.: 14497. doi:10.1038/s41598-021-93913-2Full textFull text of the publication as PDF document
  2. HDL biodistribution and brain receptors in zebrafish, using HDLs as vectors for targeting endothelial cells and neural progenitors.
    Sulliman, N. C.; Ghaddar, B.; Gence, L.; Patche, J.; Rastegar, S.; Meilhac, O.; Diotel, N.
    2021. Scientific reports, 11 (1), Art. Nr.: 6439. doi:10.1038/s41598-021-85183-9Full textFull text of the publication as PDF document
  3. Transcription organizes euchromatin via microphase separation.
    Hilbert, L.; Sato, Y.; Kuznetsova, K.; Bianucci, T.; Kimura, H.; Jülicher, F.; Honigmann, A.; Zaburdaev, V.; Vastenhouw, N. L.
    2021. Nature Communications, 12 (1), Article no: 1360. doi:10.1038/s41467-021-21589-3Full textFull text of the publication as PDF document
  4. epiTracker: A Framework for Highly Reliable Particle Tracking for the Quantitative Analysis of Fish Movements in Tanks.
    Bruch, R.; Scheikl, P. M.; Mikut, R.; Loosli, F.; Reischl, M.
    2021. SLAS technology, 26 (4), 367–376. doi:10.1177/2472630320977454
  5. Impact of the interplay between stemness features, p53 and pol iota on replication pathway choices.
    Ihle, M.; Biber, S.; Schroeder, I. S.; Blattner, C.; Deniz, M.; Damia, G.; Gottifredi, V.; Wiesmüller, L.
    2021. Nucleic acids research, 49 (13), 7457–7475. doi:10.1093/nar/gkab526Full textFull text of the publication as PDF document
  6. TRIMming Down Hormone-Driven Cancers: The Biological Impact of TRIM Proteins on Tumor Development, Progression and Prognostication.
    Pauletto, E.; Eickhoff, N.; Padrão, N.; Blattner, C.; Zwart, W.
    2021. Cells, 10 (6), Art.-Nr.: 1517. doi:10.3390/cells10061517Full textFull text of the publication as PDF document
  7. Long photoperiod impairs learning in male but not female medaka.
    López-Olmeda, J. F.; Zhao, H.; Reischl, M.; Pylatiuk, C.; Lucon-Xiccato, T.; Loosli, F.; Foulkes, N. S.
    2021. iScience, 102784. doi:10.1016/j.isci.2021.102784
  8. Regulation of ddb2 expression in blind cavefish and zebrafish reveals plasticity in the control of sunlight-induced DNA damage repair.
    Zhao, H.; Li, H.; Du, J.; Di Mauro, G.; Lungu-Mitea, S.; Geyer, N.; Vallone, D.; Bertolucci, C.; Foulkes, N. S.
    2021. PLoS Genetics, 17 (2), Art.-Nr. e1009356. doi:10.1371/JOURNAL.PGEN.1009356Full textFull text of the publication as PDF document
  9. Id1 and Id3 Are Regulated Through Matrix‐Assisted Autocrine BMP Signaling and Represent Therapeutic Targets in Melanoma.
    Sedlmeier, G.; Al‐Rawi, V.; Buchert, J.; Yserentant, K.; Rothley, M.; Steshina, A.; Gräßle, S.; Wu, R.; Hurrle, T.; Richer, W.; Decraene, C.; Thiele, W.; Utikal, J.; Abuillan, W.; Tanaka, M.; Herten, D.; Hill, C. S.; Garvalov, B. K.; Jung, N.; Bräse, S.; Sleeman, J. P.
    2021. Advanced therapeutics, 4 (2), Art.-Nr.: 2000065. doi:10.1002/adtp.202000065Full textFull text of the publication as PDF document
  10. Effects of incremental endosulfan sulfate exposure and high fat diet on lipid metabolism, glucose homeostasis and gut microbiota in mice.
    Yan, J.; Wang, D.; Meng, Z.; Yan, S.; Teng, M.; Jia, M.; Li, R.; Tian, S.; Weiss, C.; Zhou, Z.; Zhu, W.
    2021. Environmental pollution, 268 (A), Art.-Nr.: 115697. doi:10.1016/j.envpol.2020.115697
  11. Impact of Transition Metal Doping on the Structural and Optical Properties of Halide Perovskites.
    Wieghold, S.; Luo, Y.; Bieber, A. S.; Lackner, J.; Shirato, N.; Vanorman, Z. A.; Rosenmann, D.; Nienhaus, K.; Lai, B.; Nienhaus, G. U.; Rose, V.; Nienhaus, L.
    2021. Chemistry of Materials, 33 (15), 6099–6107. doi:10.1021/acs.chemmater.1c01645
  12. Correction to: Assessment of incentivizing effects for cancer care frameworks.
    Haier, J.; Sleeman, J.; Schäfers, J.
    2021. Clinical & experimental metastasis. doi:10.1007/s10585-021-10107-wFull textFull text of the publication as PDF document
  13. In Vivo Behavior of the Antibacterial Peptide Cyclo[RRRWFW], Explored Using a 3-Hydroxychromone-Derived Fluorescent Amino Acid.
    Afonin, S.; Koniev, S.; Préau, L.; Takamiya, M.; Strizhak, A. V.; Babii, O.; Hrebonkin, A.; Pivovarenko, V. G.; Dathe, M.; le Noble, F.; Rastegar, S.; Strähle, U.; Ulrich, A. S.; Komarov, I. V.
    2021. Frontiers in Chemistry, 9, Art. Nr.: 688446. doi:10.3389/fchem.2021.688446Full textFull text of the publication as PDF document
  14. The LIM domain protein nTRIP6 modulates the dynamics of myogenic differentiation.
    Norizadeh Abbariki, T.; Gonda, Z.; Kemler, D.; Urbanek, P.; Wagner, T.; Litfin, M.; Wang, Z.-Q.; Herrlich, P.; Kassel, O.
    2021. Scientific Reports, 11 (1), Art.Nr. 12904. doi:10.1038/s41598-021-92331-8Full textFull text of the publication as PDF document
  15. Regulation of p53 by E3s.
    Pan, M.; Blattner, C.
    2021. Cancers, 13 (4), Art.Nr. 745. doi:10.3390/cancers13040745Full textFull text of the publication as PDF document
  16. Fluorescence lifetime imaging microscopy (FLIM) of intracellular transport by means of doubly labelled siRNA architectures.
    Doll, L.; Lackner, J.; Rönicke, F.; Wagenknecht, H.-A.; Nienhaus, G. U.
    2021. ChemBioChem. doi:10.1002/cbic.202100150
  17. Fluorescent proteins of the EosFP clade: intriguing marker tools with multiple photoactivation modes for advanced microscopy.
    Nienhaus, K.; Nienhaus, G. U.
    2021. RSC chemical biology, 2 (3), 796–814. doi:10.1039/D1CB00014DFull textFull text of the publication as PDF document
  18. Multi-Dimensional Transcriptome Analysis Reveals Modulation of Cholesterol Metabolism as Highly Integrated Response to Brain Injury.
    Gourain, V.; Armant, O.; Lübke, L.; Diotel, N.; Rastegar, S.; Strähle, U.
    2021. Frontiers in neuroscience, 15, Article no: 671249. doi:10.3389/fnins.2021.671249Full textFull text of the publication as PDF document
  19. Efficiency of bulk perovskite-sensitized upconversion: Illuminating matters.
    Vanorman, Z. A.; Lackner, J.; Wieghold, S.; Nienhaus, K.; Nienhaus, G. U.; Nienhaus, L.
    2021. Applied Physics Letters, 118 (20), Art.-Nr.: 203903. doi:10.1063/5.0050185
  20. Axial line-scanning stimulated emission depletion fluorescence correlation spectroscopy.
    Gao, P.; Nienhaus, G. U.
    2021. Optics Letters, 46 (9), 2184–2187. doi:10.1364/OL.420765
  21. The hierarchical packing of euchromatin domains can be described as multiplicative cascades.
    Noa, A.; Kuan, H.-S.; Aschmann, V.; Zaburdaev, V.; Hilbert, L.
    2021. PLoS Computational Biology. doi:10.1371/journal.pcbi.1008974Full textFull text of the publication as PDF document
  22. Functional characterization of circulating tumor cells (CTCs) from metastatic ER+/HER2− breast cancer reveals dependence on HER2 and FOXM1 for endocrine therapy resistance and tumor cell survival: Implications for treatment of ER+/HER2− breast cancer.
    Roßwag, S.; Cotarelo, C. L.; Pantel, K.; Riethdorf, S.; Sleeman, J. P.; Schmidt, M.; Thaler, S.
    2021. Cancers, 13 (8), Art.-Nr.: 1810. doi:10.3390/cancers13081810Full textFull text of the publication as PDF document
  23. Regulatory Function of Sympathetic Innervation on the Endo/Lysosomal Trafficking of Acetylcholine Receptor.
    Straka, T.; Schröder, C.; Roos, A.; Kollipara, L.; Sickmann, A.; Williams, M. P. I.; Hafner, M.; Khan, M. M.; Rudolf, R.
    2021. Frontiers in Physiology, 12, Art.-Nr.: 626707. doi:10.3389/fphys.2021.626707Full textFull text of the publication as PDF document
  24. Finding Nemo’s clock reveals switch from nocturnal to diurnal activity.
    Schalm, G.; Bruns, K.; Drachenberg, N.; Geyer, N.; Foulkes, N. S.; Bertolucci, C.; Gerlach, G.
    2021. Scientific Reports, 11 (1), Art.-Nr.: 6801. doi:10.1038/s41598-021-86244-9Full textFull text of the publication as PDF document
  25. Wavelet-based background and noise subtraction for fluorescence microscopy images.
    Hüpfel, M.; Kobitski, A. Y. U.; Zhang, W.; Nienhaus, G. U.
    2021. Biomedical Optics Express, 12 (2), 969–980. doi:10.1364/BOE.413181Full textFull text of the publication as PDF document
  26. Cellular Mechanisms Participating in Brain Repair of Adult Zebrafish and Mammals after Injury.
    Ghaddar, B.; Lübke, L.; Couret, D.; Rastegar, S.; Diotel, N.
    2021. Cells, 10 (2), 391. doi:10.3390/cells10020391Full textFull text of the publication as PDF document
  27. Super-resolution RNA imaging using a rhodamine-binding aptamer with fast exchange kinetics.
    Sunbul, M.; Lackner, J.; Martin, A.; Englert, D.; Hacene, B.; Grün, F.; Nienhaus, K.; Nienhaus, G. U.; Jäschke, A.
    2021. Nature Biotechnology, 5096. doi:10.1038/s41587-020-00794-3
  28. Boron-rich, cytocompatible block copolymer nanoparticles by polymerization-induced self-assembly.
    Huang, L. C. S.; Le, D.; Hsiao, I. L.; Fritsch-Decker, S.; Hald, C.; Huang, S.-C.; Chen, J.-K.; Hwu, J. R.; Weiss, C.; Hsu, M.-H.; Delaittre, G.
    2021. Polymer chemistry, 12 (1), 50–56. doi:10.1039/d0py00710bFull textFull text of the publication as PDF document
  29. Air–Liquid Interface Exposure of Lung Epithelial Cells to Low Doses of Nanoparticles to Assess Pulmonary Adverse Effects.
    Diabaté, S.; Armand, L.; Murugadoss, S.; Dilger, M.; Fritsch-Decker, S.; Schlager, C.; Béal, D.; Arnal, M.-E.; Biola-Clier, M.; Ambrose, S.; Mülhopt, S.; Paur, H.-R.; Lynch, I.; Valsami-Jones, E.; Carriere, M.; Weiss, C.
    2021. Nanomaterials, 11 (1), Art. Nr.: 65. doi:10.3390/nano11010065Full textFull text of the publication as PDF document