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Scientific Publications

* Corresponding Author; # Equal Contribution; 


Research Article - Ryan O. Snodgrass, Karan Govindpani, Karen Plant, Elisabeth C. Kugler, Changmin Doh, Thomas Dawson, Luis E. McCormack, Helen M. Arthur, Timothy J.A. Chico; Therapeutic targeting of vascular malformation in a zebrafish model of hereditary haemorrhagic telangiectasia. Dis Model Mech 2023; dmm.049567. doi: 10.1242/dmm.049567

Protocol - Kugler, E.*, Breitenbach, E.-M., & MacDonald, R.* (2023). Glia cell morphology analysis using the Fiji Gliamorph toolkit. Current Protocols, 3, e654. doi: 10.1002/cpz1.654

Research Article - Kugler E.*, Bravo I., Durmishi X., Marcotti S., Beqiri S., Carrington A., Stramer B., Mattar P., MacDonald R.*; GliaMorph: A modular image analysis toolkit to quantify Muller glial cell morphology. Development 2023; dev.201008. doi:


Opinion Piece - Schlaeppi A., Adams W., Haase R., Huisken J., MacDonald R., Eliceiri K.*, and Kugler E.*,

Meeting in the middle: towards successful multidisciplinary bioimage analysis collaborations.

Frontiers in Bioinformatics, April 2022

Opinion Piece - Jurisch-Yaksi N. #, Kocere A. #, Kugler E. # *, MacDonald R. #, Mosimann C. #, and Yaksi E. #,

Microscopy approaches in zebrafish, RMS inFocus, March 2022

Journal Article - Kugler *, Frost, Silva, Plant,Chhabria, Chico, and Armitage*

Zebrafish Vascular Quantification (ZVQ): a tool for quantification of three-dimensional zebrafish cerebrovascular architecture by automated image analysis, Development, p. dev.199720, Jan. 2022, doi: 10.1242/dev.199720.


Review -  Kugler E., Greenwood J, and MacDonald R.*,

The ”Neuro-Glial-Vascular” Unit: The Role of Glia in Neurovascular Unit Formation and Dysfunction,

Front. Cell Dev. Biol., 27 September 2021,

Spotlight - Barresi M. #, Coen E. #, Kugler E. #, Shuda J. #, and Sung D.#,

Engaging new audiences with imaging and microscopy.

Development 15 September 2021; 148 (18): dev199942. doi: 

Journal Article -  Kugler E.*, Snodgrass R., Bowley G., Plant K., Serbanovic-Canic J., Hamilton N., Evans P., Chico T., and Armitage P.,

The effect of absent blood flow on the zebrafish cerebral and trunk vasculature.

Vascular Biology, Online Publication Date: 25 Aug 2021

Review - Bowley G. #, Kugler E. #, et al.,

Zebrafish as a tractable model of human cardiovascular disease,

British Journal of Pharmacology, 2021,


Review - Chico T.* and Kugler E.*,

Cerebrovascular development: mechanisms and experimental approaches,

Cell. Mol. Life Sci., Mar. 2021, doi: 10.1007/s00018-021-03790-1. (Link)


Conference Paper - Kugler E.*, Chico T. and Armitage P.,

Validating Segmentation of the Zebrafish Vasculature,

In: Zheng Y., Williams B., Chen K. (eds) Medical Image Understanding and Analysis. MIUA 2019. Communications in Computer and Information Science, vol 1065. Springer, Cham

Journal Article - Kugler E.*, van Lessen M., Daetwyler S., Chhabria K., Savage A., Silva V., Plant K., McDonald R., Huisken J., Wilkinson R., Schulte-Merker S., Armitage P. and Chico T.*,

Cerebrovascular Endothelial Cells form Transient Notch-Dependent Cystic Structures in Zebrafish,

EMBO Reports, Aug 2019

Conference Abstract - Kugler E., Chhabria K., Daetwyler S., Plant K., Savage A., Wilkinson R., Armitage P., Chico T.J.A.,

Endothelial Cells Form Transient Cystic Structures During Zebrafish Cerebrovascular Development,

Cardiovasc Drugs Ther (2019) 33: 261.

Journal Article - Kugler E.*, Plant K., Chico T. and Armitage P.,

Enhancement and Segmentation Workflow for the Developing Zebrafish Vasculature,

Journal of Imaging, MDPI, Vol. 5, Issue 1.

Journal Article - Chhabria K., Plant K., Bandmann O., Wilkinson R., Martin C., Kugler E., Armitage P., Santoscoy P., Cunliffe V., Howarth C.*, and Chico T.*,

The Effect of Hyperglycemia on Neurovascular Coupling and Cerebrovascular Patterning in Zebrafish,


Conference Paper - Kugler E.*, Chico T. and Paul A.,

Image Analysis in Light Sheet Fluorescence Microscopy Images of Transgenic Zebrafish Vascular Development,

In: Nixon, M., Mahmoodi, S. and Zwiggelaar, R., (eds.) Medical Image Understanding and Analysis. MIUA 2018, 09-11 Jul 2018, Southampton, UK. Communications in Computer and Information Science, 894 . Springer Nature Switzerland AG , pp. 343-353. ISBN 9783319959207


Journal Article - Rieder D.*, Amort T., Kugler E., Lusser A. and Trajanoski Z.,

meRanTK: Methylated RNA Analysis ToolKit,

Bioinformatics. 2016 Mar 1;32(5):782-5. doi: 10.1093/bioinformatics/btv647. Epub 2015 Nov 4.


Conference Paper - Schwerte T.*, Stolz S. and Kugler E.,

Preparing and Publishing Wikipedia Articles are a good Tool to train Project Management, Teamwork and Peer Reviewed publishing Processes in Life Sciences,

In: Improving University Teaching. Proceedings of the 37th International Conference "Fostering Knowledge Transfer - Improving University Teaching"

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