Publications of Nico Scherf

Journal Article (26)

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.
2007
Journal Article
Braumann, U.-D., Scherf, N., Einenkel, J., Horn, L.-C., Wentzensen, N., Loeffler, M., & Kuska, J.-P. (2007). Large histological serial sections for computational tissue volume reconstruction. Methods of Information in Medicine, 46, 614–622.

Conference Paper (12)

2020
Conference Paper
Burek, P., Scherf, N., & Herre, H. (2020). On the ontological foundations of cellular development. In Proceedings of the Joint Ontology Workshops (JOWO) 2020. doi:10.1101/2020.05.30.124875
Conference Paper
Burek, P., Scherf, N., & Herre, H. (2020). On the formal representation and annotation of cellular genealogies. In C. M. Keet & M. Dumontier (Eds.), Knowledge Engineering and Knowledge Management: Lecture Notes in Computer Science (Vol. 12387, pp. 194–203). Cham: Springer International Publishing.
2019
Conference Paper
De Back , W., Seurig, S., Wagner, S., Marre, B., Roeder, I., & Scherf, N. (2019). Forensic age estimation with Bayesian convolutional neural networks based on panoramic dental X-ray imaging. In Proceedings of the 2019 International Conference on Medical Imaging with Deep Learning (MIDL). Retrieved from http://hdl.handle.net/21.11116/0000-0004-C779-4
Conference Paper
Kloenne, M., Niehaus, S., Lampe, L., Merola, A., Reinelt, J., & Scherf, N. (2019). Convolutional neural network stacking for medical image segmentation in CT scans. In 2019 Kidney Tumor Segmentation Challenge. Minneapolis, MN: University of Minnesota Libraries Publishing. doi:10.24926/548719.090
2018
Conference Paper
Thierbach, K., Bazin, P.-L., de Back, W., Gavriilidis, F., Kirilina, E., Jäger, C., … Scherf, N. (2018). Combining deep learning and active contours opens the way to robust, automated analysis of brain cytoarchitectonics. In Machine Learning in Medical Imaging 2018 (pp. 179–187). Cham: Springer.
2016
Conference Paper
Thierbach, K., Shah, G., Glauche, I., Huisken, J., Roeder, I., & Scherf, N. (2016). Biology-inspired visualization of morphogenetic motion in the zebrafish endoderm. In Proceedings of the 13th International Symposium on Biomedical Imaging (ISBI) (pp. 925–929).
2014
Conference Paper
Becker, T., Kanje, W., Rapoport, D., Thierbach, K., Scherf, N., Roeder, I., & Mamlouk, A. M. (2014). The benchmark data SET CeTReS.B-MI for in vitro mitosis detection. In Proceedings of the 11th International Symposium on Biomedical Imaging (ISBI) (pp. 469–472).
Conference Paper
Burek, P., Scherf, N., & Herre, H. (2014). OWL patterns for modeling the change over time exemplified by the cell tracking ontology. In Ontologies and Data in Life Sciences (ODLS 2014). Retrieved from http://hdl.handle.net/21.11116/0000-0007-CFC1-6
2013
Conference Paper
Scherf, N., Zerjatke, T., Klemm, K., Glauche, I., & Roeder, I. (2013). Beyond genealogies: Mutual information of causal paths to analyse single cell tracking data. In Proceedings of the 10th International Symposium on Biomedical Imaging (pp. 440–443).
Conference Paper
Scherf, N., Kunze, M., Thierbach, K., Zerjatke, T., Burek, P., Herre, H., … Roeder, I. (2013). Assisting the machine paradigms for human-machine interaction in single cell tracking. In H.-P. Meinzer, T. M. Deserno, H. Handels, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2013 (pp. 116–121). Berlin, Heidelberg: Springer Berlin Heidelberg.
2010
Conference Paper
Burek, P., Herre, H., Roeder, I., Glauche, I., Scherf, N., & Löffler, M. (2010). Towards a cellular genealogy ontology. In Proceedings of the OBML 2010 Workshop. Retrieved from http://hdl.handle.net/21.11116/0000-0007-CF40-8
2008
Conference Paper
Scherf, N., Kuska, J.-P., Heine, C., Braumann, U.-D., & Franke, H. (2008). Segmentation of axonal fibres in tissue slices. In T. Tolxdorff, J. Braun, T. M. Deserno, A. Horsch, H. Handels, & H.-P. Meinzer (Eds.), Bildverarbeitung für die Medizin 2008 (pp. 178–182). Berlin, Heidelberg: Springer Berlin Heidelberg.

Meeting Abstract (2)

2018
Meeting Abstract
Brammerloh, M., Weigelt, I., Arendt, T., Gavriilidis, F., Scherf, N., Jankuhn, S., … Kirilina, E. (2018). Iron-induced relaxation mechanisms in the human substantia nigra: Towards quantifying iron load in dopaminergic neurons. In Proceedings of the ISMRM 26th Annual Meeting & Exhibition. Paris Expo Porte de Versailles. Retrieved from http://hdl.handle.net/21.11116/0000-0004-C222-A
2011
Meeting Abstract
Heine, C., Scherf, N., Sygnecka, K., Egerland, U., Hage, T., & Franke, H. (2011). Inhibitors of the phosphodiesterase 2 increased axonal fibre growth in a dopaminergic organotypic ex vivo slice co-culture model. In BMC Pharmacology (Vol. 11, pp. P34–P34). London: BioMed Central.
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