Institute of Biological and Chemical Systems - Biological Information Processing

Publications 2020


  1. The GEF Trio controls endothelial cell size and arterial remodeling downstream of Vegf signaling in both zebrafish and cell models.
    Klems, A.; van Rijssel, J.; Ramms, A. S.; Wild, R.; Hammer, J.; Merkel, M.; Derenbach, L.; Préau, L.; Hinkel, R.; Suarez-Martinez, I.; Schulte-Merker, S.; Vidal, R.; Sauer, S.; Kivelä, R.; Alitalo, K.; Kupatt, C.; van Buul, J. D.; le Noble, F.
    2020. Nature Communications, 11 (1), Art.-Nr. 5319. doi:10.1038/s41467-020-19008-0Full textFull text of the publication as PDF document
  2. Long non-coding RNA LASSIE regulates shear stress sensing and endothelial barrier function.
    Stanicek, L.; Lozano-Vidal, N.; Bink, D. I.; Hooglugt, A.; Yao, W.; Wittig, I.; van Rijssel, J.; van Buul, J. D.; van Bergen, A.; Klems, A.; Ramms, A. S.; Le Noble, F.; Hofmann, P.; Szulcek, R.; Wang, S.; Offermanns, S.; Ercanoglu, M. S.; Kwon, H.-B.; Stainier, D.; Huveneers, S.; Kurian, L.; Dimmeler, S.; Boon, R. A.
    2020. Communications biology, 3 (1), Art.Nr. 265. doi:10.1038/s42003-020-0987-0Full textFull text of the publication as PDF document
  3. 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-wFull textFull text of the publication as PDF document
  4. Inhalable aerosols from carbon fibres.
    Mülhopt, S.; Hauser, M.; Wexler, M.; Baumann, W.; Diebaté, S.; Fritsch-Decker, S.; Weiss, C.; Friesen, A.; Hufnagel, M.; Hartwig. Andrea; Gutmann, B.; Schlager, C.; Krebs, T.; Goßmann, A.-K.; Weis, F.; Stapf, D.
    2020. doi:10.5445/IR/1000125510
  5. Brownian motion-based nanoparticle sizing - A powerful approach for in situ analysis of nanoparticle-protein interactions.
    Nienhaus, K.; Nienhaus, G. U.
    2020. Biointerphases, 15 (6), Article no: 061201. doi:10.1116/6.0000438
  6. Remembering Paolo: A tribute to Paolo Sassone-Corsi.
    Foulkes, N. S.; Eckel-Mahan, K.; Cermakian, N.
    2020. Journal of pineal research, 69 (4), Art.Nr. e12692. doi:10.1111/jpi.12692
  7. EGFR/Ras-induced CCL20 production modulates the tumour microenvironment.
    Hippe, A.; Braun, S. A.; Oláh, P.; Gerber, P. A.; Schorr, A.; Seeliger, S.; Holtz, S.; Jannasch, K.; Pivarcsi, A.; Buhren, B.; Schrumpf, H.; Kislat, A.; Bünemann, E.; Steinhoff, M.; Fischer, J.; Lira, S. A.; Boukamp, P.; Hevezi, P.; Stoecklein, N. H.; Hoffmann, T.; Alves, F.; Sleeman, J.; Bauer, T.; Klufa, J.; Amberg, N.; Sibilia, M.; Zlotnik, A.; Müller-Homey, A.; Homey, B.
    2020. British journal of cancer, 123 (6), 942–954. doi:10.1038/s41416-020-0943-2
  8. A cautionary note: Toxicity of polyethylene glycol 200 injected intraperitoneally into mice.
    Thiele, W.; Kyjacova, L.; Köhler, A.; Sleeman, J. P.
    2020. Laboratory animals, 54 (4), 391–396. doi:10.1177/0023677219873684
  9. Assessment of incentivizing effects for cancer care frameworks.
    Haier, J.; Sleeman, J.; Schäfers, J.
    2020. Clinical & experimental metastasis, 37 (4), 447–450. doi:10.1007/s10585-020-10046-y
  10. Pax6 organizes the anterior eye segment by guiding two distinct neural crest waves.
    Takamiya, M.; Stegmaier, J.; Kobitski, A. Y.; Schott, B.; Weger, B. D.; Margariti, D.; Cereceda Delgado, A. R.; Gourain, V.; Scherr, T.; Yang, L.; Sorge, S.; Otte, J. C.; Hartmann, V.; Wezel, J. van; Stotzka, R.; Reinhard, T.; Schlunck, G.; Dickmeis, T.; Rastegar, S.; Mikut, R.; Nienhaus, G. U.; Strähle, U.
    2020. PLoS Genetics, 16 (6), Art. Nr.: e1008774. doi:10.1371/journal.pgen.1008774Full textFull text of the publication as PDF document
  11. Severe metabolic alterations in liver cancer lead to ERK pathway activation and drug resistance.
    Nwosu, Z. C.; Piorońska, W.; Battello, N.; Zimmer, A. D.; Dewidar, B.; Han, M.; Pereira, S.; Blagojevic, B.; Castven, D.; Charlestin, V.; Holenya, P.; Lochead, J.; De La Torre, C.; Gretz, N.; Sajjakulnukit, P.; Zhang, L.; Ward, M. H.; Marquardt, J. U.; di Magliano, M. P.; Lyssiotis, C. A.; Sleeman, J.; Wölfl, S.; Ebert, M. P.; Meyer, C.; Hofmann, U.; Dooley, S.
    2020. EBioMedicine, 54, Art.Nr.: 102699. doi:10.1016/j.ebiom.2020.102699Full textFull text of the publication as PDF document
  12. Toxicity of mercury: Molecular evidence.
    Yang, L.; Zhang, Y.; Wang, F.; Luo, Z.; Guo, S.; Strähle, U.
    2020. Chemosphere, 245, 125586. doi:10.1016/j.chemosphere.2019.125586
  13. Toxicity assessment of pristine and thermally treated carbon fibres.
    Diabaté, S.; Fritsch-Decker, S.; Mülhopt, S.; Wexler, M.; Hauser, M.; Baumann, W.; Hufnagel, M.; Friesen, A.; Hartwig, A.; Stapf, D.; Weiss, C.
    2020. Naunyn-Schmiedeberg’s archives of pharmacology, 393 (S1), S89. doi:10.1007/s00210-020-01828-y
  14. The contribution of platelets to intravascular arrest, extravasation, and outgrowth of disseminated tumor cells.
    Foss, A.; Muñoz-Sagredo, L.; Sleeman, J.; Thiele, W.
    2020. Clinical & experimental metastasis, 37 (1), 47–67. doi:10.1007/s10585-019-10009-y
  15. Toxicology and Risk Assessment: A Comprehensive Introduction, 2nd Edition. Edited by Helmut Greim and Robert Snyder.
    Dietrich, C.; Weiss, C.
    2020. ChemMedChem, 15 (1), 172. doi:10.1002/cmdc.201900586
  16. Human innate immune cell crosstalk induces melanoma cell senescence.
    Funck, F.; Pahl, J.; Kyjacova, L.; Freund, L.; Oehrl, S.; Gräbe, G.; Pezer, S.; Hassel, J. C.; Sleeman, J.; Cerwenka, A.; Schäkel, K.
    2020. OncoImmunology, 9 (1), Article-Nr.: 1808424. doi:10.1080/2162402X.2020.1808424
  17. Correction to: Gene duplication and functional divergence of the zebrafish otospiralin genes.
    Baanannou, A.; Rastegar, S.; Bouzid, A.; Takamiya, M.; Gerber, V.; Souissi, A.; Beil, T.; Jrad, O.; Strähle, U.; Masmoudi, S.
    2020. Development genes and evolution, 230 (1), 37. doi:10.1007/s00427-020-00647-8
  18. 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.
    2020. SLAS technology. doi:10.1177/2472630320977454
  19. 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.
    2020. Advanced therapeutics, Art.-Nr.: 2000065. doi:10.1002/adtp.202000065Full textFull text of the publication as PDF document
  20. Application of ethyl cinnamate based optical tissue clearing and expansion microscopy combined with retrograde perfusion for 3D lung imaging.
    Sun, Q.; Picascia, T.; Khan, A. ul M.; Brenna, C.; Heuveline, V.; Schmaus, A.; Sleeman, J. P.; Gretz, N.
    2020. Experimental lung research, 1–16. doi:10.1080/01902148.2020.1829183
  21. RASSF1A Suppresses Estrogen-Dependent Breast Cancer Cell Growth through Inhibition of the Yes-Associated Protein 1 (YAP1), Inhibition of the Forkhead Box Protein M1 (FOXM1), and Activation of Forkhead Box Transcription Factor 3A (FOXO3A).
    Roßwag, S.; Thiede, G.; Sleeman, J. P.; Thaler, S.
    2020. Cancers, 12 (9), Art. Nr.: 2689. doi:10.3390/cancers12092689Full textFull text of the publication as PDF document
  22. Genetically encoded thiol redox-sensors in the zebrafish model: Lessons for embryonic development and regeneration.
    Breus, O.; Dickmeis, T.
    2020. Biological chemistry, 402 (3), 363–378. doi:10.1515/hsz-2020-0269
  23. Development of Open-Field Behaviour in the Medaka, Oryzias latipes.
    Lucon-Xiccato, T.; Conti, F.; Loosli, F.; Foulkes, N. S.; Bertolucci, C.
    2020. Biology, 9 (11), Article: 389. doi:10.3390/biology9110389Full textFull text of the publication as PDF document
  24. The Genetic Programs Specifying Kolmer–Agduhr Interneurons.
    Yang, L.; Wang, F.; Strähle, U.
    2020. Frontiers in neuroscience, 14, Art.-Nr.: 577879. doi:10.3389/fnins.2020.577879Full textFull text of the publication as PDF document
  25. MondoA regulates gene expression in cholesterol biosynthesis-associated pathways required for zebrafish epiboly.
    Weger, M.; Weger, B. D.; Schink, A.; Takamiya, M.; Stegmaier, J.; Gobet, C.; Parisi, A.; Kobitski, A. Y.; Mertes, J.; Krone, N.; Strähle, U.; Nienhaus, G. U.; Mikut, R.; Gachon, F.; Gut, P.; Dickmeis, T.
    2020. eLife, 9, Art. Nr. e57068. doi:10.7554/eLife.57068Full textFull text of the publication as PDF document
  26. Introducing Biomedisa as an open-source online platform for biomedical image segmentation.
    Lösel, P. D.; Van de Kamp, T.; Jayme, A.; Ershov, A.; Faragó, T.; Pichler, O.; Tan Jerome, N.; Aadepu, N.; Bremer, S.; Chilingaryan, S. A.; Heethoff, M.; Kopmann, A.; Odar, J.; Schmelzle, S.; Zuber, M.; Wittbrodt, J.; Baumbach, T.; Heuveline, V.
    2020. Nature Communications, 11 (1), Article no: 5577. doi:10.1038/s41467-020-19303-wFull textFull text of the publication as PDF document
  27. Common and Distinct Features of Adult Neurogenesis and Regeneration in the Telencephalon of Zebrafish and Mammals.
    Diotel, N.; Lübke, L.; Strähle, U.; Rastegar, S.
    2020. Frontiers in neuroscience, 14, Art.-Nr.: 568930. doi:10.3389/fnins.2020.568930Full textFull text of the publication as PDF document
  28. One‐Step Fabrication of Perovskite‐Based Upconversion Devices.
    Wieghold, S.; Bieber, A. S.; Lackner, J.; Nienhaus, K.; Nienhaus, G. U.; Nienhaus, L.
    2020. ChemPhotoChem, 4 (9), 704–712. doi:10.1002/cptc.202000068
  29. Improving quality in nanoparticle-induced cytotoxicity testing by a tiered inter-laboratory comparison study.
    Nelissen, I.; Haase, A.; Anguissola, S.; Rocks, L.; Jacobs, A.; Willems, H.; Riebeling, C.; Luch, A.; Piret, J.-P.; Toussaint, O.; Trouiller, B.; Lacroix, G.; Gutleb, A. C.; Contal, S.; Diabaté, S.; Weiss, C.; Lozano-Fernández, T.; González-Fernández, Á.; Dusinska, M.; Huk, A.; Stone, V.; Kanase, N.; Nocuń, M.; Stępnik, M.; Meschini, S.; Ammendolia, M. G.; Lewinski, N.; Riediker, M.; Venturini, M.; Benetti, F.; Topinka, J.; Brzicova, T.; Milani, S.; Rädler, J.; Salvati, A.; Dawson, K. A.
    2020. Nanomaterials, 10 (8), Art.Nr. 1430. doi:10.3390/nano10081430Full textFull text of the publication as PDF document
  30. Sociocultural incentives for cancer care implementation.
    Haier, J.; Sleeman, J.; Schäfers, J.
    2020. Clinical & experimental metastasis. doi:10.1007/s10585-020-10050-2Full textFull text of the publication as PDF document
  31. Toward Nanotechnology-Enabled Approaches against the COVID-19 Pandemic.
    Weiss, C.; Carriere, M.; Fusco, L.; Capua, I.; Regla-Nava, J. A.; Pasquali, M.; Scott, J. A.; Vitale, F.; Unal, M. A.; Mattevi, C.; Bedognetti, D.; Merkoçi, A.; Tasciotti, E.; Yilmazer, A.; Gogotsi, Y.; Stellacci, F.; Delogu, L. G.
    2020. ACS nano, 14 (6), 6383–6406. doi:10.1021/acsnano.0c03697
  32. Influence of wood species on toxicity of log-wood stove combustion aerosols: A parallel animal and air-liquid interface cell exposure study on spruce and pine smoke.
    Ihantola, T.; Di Bucchianico, S.; Happo, M.; Ihalainen, M.; Uski, O.; Bauer, S.; Kuuspalo, K.; Sippula, O.; Tissari, J.; Oeder, S.; Hartikainen, A.; Rönkkö, T. J.; Martikainen, M.-V.; Huttunen, K.; Vartiainen, P.; Suhonen, H.; Kortelainen, M.; Lamberg, H.; Leskinen, A.; Sklorz, M.; Michalke, B.; Dilger, M.; Weiss, C.; Dittmar, G.; Beckers, J.; Irmler, M.; Buters, J.; Candeias, J.; Czech, H.; Yli-Pirilä, P.; Abbaszade, G.; Jakobi, G.; Orasche, J.; Schnelle-Kreis, J.; Kanashova, T.; Karg, E.; Streibel, T.; Passig, J.; Hakkarainen, H.; Jokiniemi, J.; Zimmermann, R.; Hirvonen, M.-R.; Jalava, P. I.
    2020. Particle and fibre toxicology, 17 (1), Article: 27. doi:10.1186/s12989-020-00355-1Full textFull text of the publication as PDF document
  33. Measuring ligand-cell surface receptor affinities with axial line-scanning fluorescence correlation spectroscopy.
    Eckert, A. F.; Gao, P.; Wesslowski, J.; Wang, X.; Rath, J.; Nienhaus, K.; Davidson, G.; Nienhaus, G. U.
    2020. eLife, 9, Article No. e55286. doi:10.7554/eLife.55286Full textFull text of the publication as PDF document
  34. Pcdh18a regulates endocytosis of E-cadherin during axial mesoderm development in zebrafish.
    Bosze, B.; Ono, Y.; Mattes, B.; Sinner, C.; Gourain, V.; Thumberger, T.; Tlili, S.; Wittbrodt, J.; Saunders, T. E.; Strähle, U.; Schug, A.; Scholpp, S.
    2020. Histochemistry and cell biology. doi:10.1007/s00418-020-01887-5Full textFull text of the publication as PDF document
  35. Expression of a Barhl1a reporter in subsets of retinal ganglion cells and commissural neurons of the developing zebrafish brain.
    Albadri, S.; Armant, O.; Aljand-Geschwill, T.; Del Bene, F.; Carl, M.; Strähle, U.; Poggi, L.
    2020. Scientific reports, 10 (1), Art. Nr.: 8814. doi:10.1038/s41598-020-65435-wFull textFull text of the publication as PDF document
  36. Proteasome subunit variants cause neurosensory syndrome combining deafness and cataract due to proteotoxic stress.
    Kröll‐Hermi, A.; Ebstein, F.; Stoetzel, C.; Geoffroy, V.; Schaefer, E.; Scheidecker, S.; Bär, S.; Takamiya, M.; Kawakami, K.; Zieba, B. A.; Studer, F.; Pelletier, V.; Eyermann, C.; Speeg‐Schatz, C.; Laugel, V.; Lipsker, D.; Sandron, F.; McGinn, S.; Boland, A.; Deleuze, J.; Kuhn, L.; Chicher, J.; Hammann, P.; Friant, S.; Etard, C.; Krüger, E.; Muller, J.; Strähle, U.; Dollfus, H.
    2020. EMBO molecular medicine, 12 (7), Art. Nr.: e11861. doi:10.15252/emmm.201911861Full textFull text of the publication as PDF document
  37. Bone morphogenetic protein signaling regulates Id1-mediated neural stem cell quiescence in the adult zebrafish brain via a phylogenetically conserved enhancer module.
    Zhang, G.; Ferg, M.; Lübke, L.; Takamiya, M.; Beil, T.; Gourain, V.; Diotel, N.; Strähle, U.; Rastegar, S.
    2020. Stem cells, 38, 875–889. doi:10.1002/stem.3182Full textFull text of the publication as PDF document
  38. Nano Meets Micro-Translational Nanotechnology in Medicine: Nano-Based Applications for Early Tumor Detection and Therapy.
    Siemer, S.; Wünsch, D.; Khamis, A.; Lu, Q.; Scherberich, A.; Filippi, M.; Krafft, M. P.; Hagemann, J.; Weiss, C.; Ding, G.-B.; Stauber, R. H.; Gribko, A.
    2020. Nanomaterials, 10 (2), 383. doi:10.3390/nano10020383Full textFull text of the publication as PDF document
  39. Guidance of healthcare development for metastatic cancer patients as an example for setting incentives.
    Haier, J.; Sleeman, J.; Schäfers, J.
    2020. Clinical & experimental metastasis, 37 (1), 1–5. doi:10.1007/s10585-019-10014-1
  40. Differential Nanoparticle Sequestration by Macrophages and Scavenger Endothelial Cells Visualized in Real-Time and at Ultrastructural Resolution.
    Hayashi, Y.; Takamiya, M.; Jensen, P. B.; Ojea-Jiménez, I.; Claude, H.; Antony, C.; Kjaer-Sorensen, K.; Grabher, C.; Boesen, T.; Gilliland, D.; Oxvig, C.; Straehle, U.; Weiss, C.
    2020. ACS nano, 14 (2), 1665–1681. doi:10.1021/acsnano.9b07233
  41. Light-controllable dithienylethene-modified cyclic peptides: photoswitching the in vivo toxicity in zebrafish embryos.
    Afonin, S.; Babii, O.; Reuter, A.; Middel, V.; Takamiya, M.; Strähle, U.; Komarov, I. V.; Ulrich, A. S.
    2020. Beilstein journal of organic chemistry, 16, 39–49. doi:10.3762/bjoc.16.6Full textFull text of the publication as PDF document
  42. Self-assembled thermosensitive luminescent nanoparticles with peptide-Au conjugates for cellular imaging and drug delivery.
    Zhang, X.; Liu, W.; Wang, H.; Zhao, X.; Zhang, Z.; Nienhaus, G. U.; Shang, L.; Su, Z.
    2020. Chinese chemical letters, 31 (3), 859–864. doi:10.1016/j.cclet.2019.06.032