Institute of Biological and Chemical Systems - Biological Information Processing


  1. Automated high-throughput heartbeat quantification in medaka and zebrafish embryos under physiological conditions.
    Gierten, J.; Pylatiuk, C.; Hammouda, O. T.; Schock, C.; Stegmaier, J.; Wittbrodt, J.; Gehrig, J.; Loosli, F.
    2020. Scientific reports, 10 (1), Article no: 2046. doi:10.1038/s41598-020-58563-w
  2. DIY Automated Feeding and Motion Recording System for the Analysis of Fish behaviour.
    Pylatiuk, C.; Zhao, H.; Gursky, E.; Reischl, M.; Peravali, R.; Foulkes, N.; Loosli, F.
    2019. SLAS technology, 24 (4), 394–398. doi:10.1177/2472630319841412
  3. Systems Genetics Approach to Study Congenital Heart Disease in a Fish Model.
    Gierten, J.; Loosli, F.; Gehrig, J.; Pylatiuk, C.; Fitzgerald, T.; Birney, E.; Wittbrodt, J.; Gorenflo, M.
    2018. The thoracic and cardiovascular surgeon, 66 (S02). doi:10.1055/s-0038-1628326
  4. Systems Genetics Approach to Study Congenital Heart Disease in a Fish Model.
    Gierten, J.; Loosli, F.; Gehrig, J.; Pylatiuk, C.; Fitzgerald, T.; Birney, E.; Wittbrodt, J.; Gorenflo, M.
    2018. 50th Annual Meeting of the German Society for Pediatric Cardiology (DGPK 2018), Leipzig, Germany, February 17–20, 2018
  5. Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography.
    Weinhardt, V.; Shkarin, R.; Wernet, T.; Wittbrodt, J.; Baumbach, T.; Loosli, F.
    2018. Scientific reports, 8 (1), Art. Nr.: 16531. doi:10.1038/s41598-018-34848-z
  6. A Whole Brain Staining, Embedding, and Clearing Pipeline for Adult Zebrafish to Visualize Cell Proliferation and Morphology in 3-Dimensions.
    Lindsey, B. W.; Douek, A. M.; Loosli, F.; Kaslin, J.
    2018. Frontiers in neuroscience, 11. doi:10.3389/fnins.2017.00750
  7. Gastrulation in an annual killifish : Molecular and cellular events during germ layer formation in Austrolebias.
    Pereiro, L.; Loosli, F.; Fernández, J.; Härtel, S.; Wittbrodt, J.; Concha, M. L.
    2017. Developmental dynamics, 246 (11), 812–826. doi:10.1002/dvdy.24496
  8. Identification, visualization and clonal analysis of intestinal stem cells in fish.
    Aghaallaei, N.; Gruhl, F.; Schaefer, C. Q.; Wernet, T.; Weinhardt, V.; Centanin, L.; Loosli, F.; Baumbach, T.; Wittbrodt, J.
    2016. Development <Cambridge>, 143 (19), 3470–3480. doi:10.1242/dev.134098
  9. TRIM25 has a dual function in the p53/Mdm2 circuit.
    Zhang, P.; Elabd, S.; Hammer, S.; Solozobova, V.; Yan, H.; Bartel, F.; Inoue, S.; Henrich, T.; Wittbrodt, J.; Loosli, F.; Davidson, G.; Blattner, C.
    2015. Oncogene, 34, 5729–5738. doi:10.1038/onc.2015.21
  10. The genomic and genetic toolbox of the teleost medaka (oryzias latipes).
    Kirchmaier, S.; Naruse, K.; Wittbrodt, J.; Loosli, F.
    2015. Genetics, 199 (4), 905–918. doi:10.1534/genetics.114.173849
  11. Genomic and Phenotypic Characterization of a Wild Medaka Population : Towards the Establishment of an Isogenic Population Genetic Resource in Fish.
    Spivakov, M.; Auer, T. O.; Peravali, R.; Dunham, I.; Dolle, D.; Fujiyama, A.; Toyoda, A.; Aizu, T.; Minakuchi, Y.; Loosli, F.; Naruse, K.; Birney, E.; Wittbrodt, J.
    2014. G3: Genes, genomes, genetics, 4 (3), 433–445. doi:10.1534/g3.113.008722
  12. Description of embryonic development of Spotted Green Pufferfish (Tetraodon nigroviridis).
    Zaucker, A.; Bodur, T.; Roest Crollius, H.; Hadzhiev, Y.; Gehrig, J.; Loosli, F.; Watson, C.; Müller, F.
    2014. Zebrafish, 11 (6), 509–517. doi:10.1089/zeb.2014.0984
  13. Differential maturation of rhythmic clock gene expression during early development in medaka (Oryzias latipes).
    Cuesta, I. H.; Lahiri, K.; Lopez-Olmeda, J. F.; Loosli, F.; Foulkes, N. S.; Vallone, D.
    2014. Chronobiology international, 31 (4), 468–478. doi:10.3109/07420528.2013.856316
  14. ArhGEF18 regulated Rho signaling in vertebrate retina development.
    Loosli, F.
    2013. Small GTPases, 4, 242–246. doi:10.4161/sgtp.27061
  15. ArhGEF18 regulates RhoA-Rock2 signaling to maintain neuro-epithelial apico-basal polarity and proliferation.
    Herder, C.; Swiercz, J. M.; Müller, C.; Peravali, R.; Quiring, R.; Offermanns, S.; Wittbrodt, J.; Loosli, F.
    2013. Development, 140, 2787–2797. doi:10.1242/dev.096487
  16. Sequencing of Pax6 loci from the elephant shark reveals a family of Pax6 genes in vertebrate genomes, forged by ancient duplications and divergences.
    Ravi, V.; Bhatia, S.; Gautier, P.; Loosli, F.; Tay, B. H.; Tay, A.; Murdoch, E.; Coutinho, P.; Heyningen, V.; Brenner, S.; Venkatesh, B.; Kleinjan, D. A.
    2013. PLoS Genetics, 9, e1003177/1–24. doi:10.1371/journal.pgen.1003177
  17. A high-throughput chemically induced inflammation assay in zebrafish.
    d’Alencon, C. A.; Pena, O. A.; Wittmann, C.; Gallardo, V. E.; Jones, R. A.; Loosli, F.; Liebel, U.; Grabher, C.; Allende, M. L.
    2010. BMC Biology, 151/1-16, 8. doi:10.1186/1741-7007-8-151
  18. Nicam modulates midline convergence during anterior neural plate morphogenesis.
    Brown, K. E.; Keller, P. J.; Ramialison, M.; Rembold, M.; Stelzer, E. H. K.; Loosli, F.; Wittbrodt, J.
    2010. Developmental Biology, 339, 14–25. doi:10.1016/j.ydbio.2009.12.003
  19. Zebrafish and medaka: model organisms for a comparative developmental approach of brain asymmetry.
    Signore, I. A.; Guerrero, N.; Loosli, F.; Colombo, A.; Villalon, A.; Wittbrodt, J.; Concha, M. L.
    2009. Philosophical Transactions of the Royal Society B, 364 (1519), 991–1003. doi:10.1098/rstb.2008.0260