Publications of Nico Scherf

Journal Article (21)

2021
Journal Article
Wagner, S., Thierbach, K., Zerjatke, T., Glauche, I., Roeder, I., & Scherf, N. (2021). TraCurate: Efficiently curating cell tracks. SoftwareX, 13. doi:10.1016/j.softx.2021.100656
2020
Journal Article
Kloenne, M., Niehaus, S., Lampe, L., Merola, A., Reinelt, J., Roeder, I., & Scherf, N. (2020). Domain-specific cues improve robustness of deep learning-based segmentation of CT volumes. Scientific Reports, 10. doi:10.1038/s41598-020-67544-y
2019
Journal Article
Shah, G., Thierbach, K., Schmid, B., Waschke, J., Reade, A., Hlawitschka, M., … Huisken, J. (2019). Multi-scale imaging and analysis identify pan-embryo cell dynamics of germlayer formation in zebrafish. Nature Communications, 10. doi:10.1038/s41467-019-13625-0
Journal Article
Burek, P., Scherf, N., & Herre, H. (2019). Ontology patterns for the representation of quality changes of cells in time. Journal of Biomedical Semantics, 10. doi:10.1186/s13326-019-0206-4
Journal Article
Burek, P., Scherf, N., & Herre, H. (2019). A pattern-based approach to a cell tracking ontology. Procedia Computer Science, 159, 784–793.
2018
Journal Article
Morawski, M., Kirilina, E., Scherf, N., Jäger, C., Reimann, K., Trampel, R., … Weiskopf, N. (2018). Developing 3D microscopy with CLARITY on human brain tissue: Towards a tool for informing and validating MRI-based histology. NeuroImage, 182, 417–428.
2017
Journal Article
Weber, M., Scherf, N., Meyer, A. M., Panáková, D., Kohl, P., & Huisken, J. (2017). Cell-accurate optical mapping across the entire developing heart. ELife, 6. doi:10.7554/eLife.28307.001
Journal Article
Bensch, R., Scherf, N., Huisken, J., Brox, T., & Ronneberger, O. (2017). Spatiotemporal deformable prototypes for motion anomaly detection. International Journal of Computer Vision, 122, 502–523.
2015
Journal Article
Scherf, N., & Huisken, J. (2015). The smart and gentle microscope. Nature Biotechnology, 33, 815–818.
Journal Article
Heine, C., Sygnecka, K., Scherf, N., Grohmann, M., Bräsigk, A., & Franke, H. (2015). P2Y1 receptor mediated neuronal fibre outgrowth in organotypic brain slice co-cultures. Neuropharmacology, 93, 252–266.
Journal Article
Niederberger, T., Failmezger, H., Uskat, D., Poron, D., Glauche, I., Scherf, N., … Tresch, A. (2015). Factor graph analysis of live cell–imaging data reveals mechanisms of cell fate decisions. Bioinformatics, 31, 1816–1823.
Journal Article
Sygnecka, K., Heider, A., Scherf, N., Alt, R., Franke, H., & Heine, C. (2015). Mesenchymal stem cells support neuronal fiber growth in an organotypic brain slice co-culture model. Stem Cells and Development, 24, 824–835.
Journal Article
Sygnecka, K., Heine, C., Scherf, N., Fasold, M., Binder, H., Scheller, C., & Franke, H. (2015). Nimodipine enhances neurite outgrowth in dopaminergic brain slice co‐cultures. International Journal of Developmental Neuroscience, 40, 1–11.
2014
Journal Article
Bach, E., Zerjatke, T., Herklotz, M., Scherf, N., Niederwieser, D., Roeder, I., … Glauche, I. (2014). Elucidating functional heterogeneity in hematopoietic progenitor cells: A combined experimental and modeling approach. Experimental Hematology, 42, 826–837.e17.
Journal Article
Rashidi, N. M., Scott, M. K., Scherf, N., Krinner, A., Kalchschmidt, J. S., Gounaris, K., … Lo Celso, C. (2014). In vivo time-lapse imaging shows diverse niche engagement by quiescent and naturally activated hematopoietic stem cells. Blood, 124, 79–83.
2013
Journal Article
Heine, C., Sygnecka, K., Scherf, N., Berndt, A., Egerland, U., Hage, T., & Franke, H. (2013). Phosphodiesterase 2 inhibitors promote axonal outgrowth in organotypic slice co-cultures. Neurosignals, 21, 197–212.
Journal Article
Weber, M., Scherf, N., Kahl, T., Braumann, U.-D., Scheibe, P., Kuska, J.-P., … Franke, H. (2013). Quantitative analysis of astrogliosis in drug-dependent humans. Brain Research, 1500, 72–87.
Journal Article
Schmid, B., Shah, G., Scherf, N., Weber, M., Thierbach, K., Campos, C. P., … Huisken, J. (2013). High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics. Nature Communications, 4. doi:10.1038/ncomms3207
2012
Journal Article
Scherf, N., Herberg, M., Thierbach, K., Zerjatke, T., Kalkan, T., Humphreys, P., … Roeder, I. (2012). Imaging, quantification and visualization of spatio-temporal patterning in mESC colonies under different culture conditions. Bioinformatics, 28, i556–i561.
Journal Article
Scherf, N., Franke, K., Glauche, I., Kurth, I., Bornhäuser, M., Werner, C., … Roeder, I. (2012). On the symmetry of siblings: Automated single-cell tracking to quantify the behavior of hematopoietic stem cells in a biomimetic setup. Experimental Hematology, 40, 119–130.e9.
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