{"id":4441,"date":"2019-11-07T14:10:28","date_gmt":"2019-11-07T13:10:28","guid":{"rendered":"http:\/\/www.igmm.cnrs.fr\/mitotrack-a-user-friendly-semi-automatic-software-for-lineage-tracking-in-living-embryos\/"},"modified":"2019-11-07T14:40:31","modified_gmt":"2019-11-07T13:40:31","slug":"mitotrack-a-user-friendly-semi-automatic-software-for-lineage-tracking-in-living-embryos","status":"publish","type":"post","link":"https:\/\/www.igmm.cnrs.fr\/en\/mitotrack-a-user-friendly-semi-automatic-software-for-lineage-tracking-in-living-embryos\/","title":{"rendered":"MitoTrack, a user-friendly semi-automatic software for lineage tracking in living embryos"},"content":{"rendered":"

During development, progenitor cells undergo multiple rounds of cellular divisions during which transcriptional programs must be faithfully propagated. To study mitotic inheritance of these programs, it is essential to be able to track transcriptional activities and their transmission from mother to daughter cells in living embryos. Given the stochastic nature of the phenomena, it is necessary to collect and analyze big amount of data to look at the statistical distribution of the results. For this purpose, we developed MitoTrack, a custom build software, developed in PythonTM with a user-friendly graphical user interface (GUI) which provides graphical tools for manual corrections, visualization and check of the results. In order to study the temporal activation of transcriptions in consecutive cell cycles, MitoTrack tracks nuclei across mitosis keeping lineage information and detecting the appearance of transcriptional sites. As a result, we can extract the activation time of each nucleus and its daughters allowing us to study transcriptional memory across mitosis.<\/p>\n

Bioinformatics. 2019 Oct 3. pii: btz717. doi: 10.1093\/bioinformatics\/btz717. [Epub ahead of print]<\/a>
\nMitoTrack, a user-friendly semi-automatic software for lineage tracking in living embryos.
\nTrullo A, Dufourt J, Lagha M.<\/p>\n

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Fig. 1. MitoTrack GUI to track transcriptional activation and nuclei lineage. (a) Main window composed of four distinct panels, among which, two are shown here, with raw nuclei channel (upper left) and detected nuclei (upper right). MitoTrack typical tools and edit boxes are shown on the left. (b) \u2018Modifier Mitosis Tool\u2019 showing all its commands and parameters. Three typical images of nuclei at a time t, t\u2009+\u20091 and their overlap are shown to illustrate the basis of the algorithm for automatic nuclei tracking during mitosis. (c) Interface of the \u2018Modify Segmentation Tool\u2019 with its main commands visible. Exemplary results of manual corrections of nuclei segmentation
Unless provided in the caption above, the following copyright applies to the content of this slide: \u00a9 The Author(s) 2019. Published by Oxford University Press.This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com<\/figcaption><\/figure>\n

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During development, progenitor cells undergo multiple rounds of cellular divisions during which transcriptional programs must be faithfully propagated. To study mitotic inheritance of these programs, it is essential to be able to track transcriptional activities and their transmission from mother to daughter cells in living embryos. Given the stochastic nature of the phenomena, it is necessary to collect and analyze … Continue reading MitoTrack, a user-friendly semi-automatic software for lineage tracking in living embryos<\/span><\/a><\/p>\n","protected":false},"author":4,"featured_media":4435,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[4,16],"tags":[],"class_list":["post-4441","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-general-news","category-science-en"],"_links":{"self":[{"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/posts\/4441","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/comments?post=4441"}],"version-history":[{"count":5,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/posts\/4441\/revisions"}],"predecessor-version":[{"id":4447,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/posts\/4441\/revisions\/4447"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/media\/4435"}],"wp:attachment":[{"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/media?parent=4441"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/categories?post=4441"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.igmm.cnrs.fr\/en\/wp-json\/wp\/v2\/tags?post=4441"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}