2026-06-14T00:27:29Zhttps://repisalud.isciii.es/rest/oai/requestoai:repisalud.isciii.es:20.500.12105/83762024-09-27T08:22:20Zcom_20.500.12105_19604com_20.500.12105_2051col_20.500.12105_19605
Repisalud
author
Annila, Teppo
author
Lihavainen, Eero
author
Marques, Ines Joao
author
Williams, Darren R
author
Yli-Harja, Olli
author
Ribeiro, Andre
funder
Finlands Akademi (Finlandia)
funder
Emil Aaltosen Säätiö (Finlandia)
funder
Finnish Funding Agency for Technology and Innovation
2019-09-25T05:51:42Z
2019-09-25T05:51:42Z
2013-08
BMC Bioinformatics. 2013; 14(Suppl 10):S5
10.1186/1471-2105-14-S10-S5
1471-2105
1471-2105
BMC bioinformatics
24267347
http://hdl.handle.net/20.500.12105/8376
BACKGROUND: Zebrafish embryos have recently been established as a xenotransplantation model of the metastatic behaviour of primary human tumours. Current tools for automated data extraction from the microscope images are restrictive concerning the developmental stage of the embryos, usually require laborious manual image preprocessing, and, in general, cannot characterize the metastasis as a function of the internal organs. METHODS: We present a tool, ZebIAT, that allows both automatic or semi-automatic registration of the outer contour and inner organs of zebrafish embryos. ZebIAT provides a registration at different stages of development and an automatic analysis of cancer metastasis per organ, thus allowing to study cancer progression. The semi-automation relies on a graphical user interface. RESULTS: We quantified the performance of the registration method, and found it to be accurate, except in some of the smallest organs. Our results show that the accuracy of registering small organs can be improved by introducing few manual corrections. We also demonstrate the applicability of the tool to studies of cancer progression. CONCLUSIONS: ZebIAT offers major improvement relative to previous tools by allowing for an analysis on a per-organ or region basis. It should be of use in high-throughput studies of cancer metastasis in zebrafish embryos.
eng
ZebIAT, an image analysis tool for registering zebrafish embryos and quantifying cancer metastasis
journal article
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URL
https://repisalud.isciii.es/bitstreams/892c3a54-a1ed-4a0c-a6a8-7749e87b5c5d/download
File
MD5
c78b9863e7b864d77a21296e44267d81
3355300
application/pdf
ZebIATImageAnalysisTool_2013.pdf
URL
https://repisalud.isciii.es/bitstreams/d91cf461-9d85-4eb8-9b5e-432dd114cc0c/download
File
MD5
d5b4309d4104f7696ee1913baba00e9b
29748
text/plain
ZebIATImageAnalysisTool_2013.pdf.txt