Publications of Nico Scherf

Journal Article (26)

2022
Journal Article
Maiello, L., Ball, L., Micali, M., Iannuzzi, F., Scherf, N., Hoffmann, R.-T., … Huhle, R. (2022). Automatic lung segmentation and quantification of aeration in computed tomography of the chest using 3D transfer learning. Frontiers in Physiology, 12. doi:10.3389/fphys.2021.725865
2021
Journal Article
Hoffmann, H., Baldow, C., Zerjatke, T., Gottschalk, A., Wagner, S., Karg, E., … Scherf, N. (2021). How to predict relapse in leukemia using time series data: A comparative in silico study. PLoS One, 16. doi:10.1371/journal.pone.0256585
Journal Article
Waschke, J., Hlawitschka, M., Anlas, K., Trivedi, V., Roeder, I., Huisken, J., & Scherf, N. (2021). linus: Conveniently explore, share, and present large-scale biological trajectory data in a web browser. PLoS Computational Biology, 17. doi:10.1371/journal.pcbi.1009503
Journal Article
Braune, M., Scherf, N., Heine, C., Sygnecka, K., Pillaiyar, T., Parravicini, C., … Franke, H. (2021). Involvement of GPR17 in neuronal fibre outgrowth. International Journal of Molecular Sciences, 22. doi:10.3390/ijms222111683
Journal Article
Zoraghi, M., Scherf, N., Jaeger, C., Sack, I., Hirsch, S., Hetzer, S., & Weiskopf, N. (2021). Simulating local deformations in the human cortex due to blood flow-induced changes in mechanical tissue properties: Impact on functional magnetic resonance imaging. Frontiers in Neuroscience, 15. doi:10.3389/fnins.2021.722366
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.
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