Microscopy-based assessment of RNA polymerase II clusters in zebrafish embryos treated with JQ1 and flavopiridol

<p>This repository contains the data and MatLab analysis scripts of the analysis of histone 3 lysine 27 acetylation (H3K27ac) at RNA polymerase II clusters in&nbsp;zebrafish embryos treated with the inhibitors JQ1 or flavopiridol. Samples were prepared and images were recorded by S&uuml;heyla Eroglu-Kayikci and&nbsp;Elisa K&auml;mmer&nbsp;in Lennart Hilbert&#39;s laboratory, images were analyzed by Lennart Hilbert.</p> <p>To analyse date data, the raw image data are first extracted into MatLab-native files using the&nbsp;<a href="https://zenodo.org/api/files/2f2192f4-a05c-4969-ba0a-4f235b837709/MultiPosition_extraction_nd2.m">MultiPosition_extraction_nd2.m</a>&nbsp;script. The actual analysis is then carried out using the&nbsp;<a href="https://zenodo.org/api/files/2f2192f4-a05c-4969-ba0a-4f235b837709/ClusterAnalysis.m">ClusterAnalysis.m</a>&nbsp;script. Example microscopy images were produced using the&nbsp;<a href="https://zenodo.org/api/files/2f2192f4-a05c-4969-ba0a-4f235b837709/ExampleImages.m">ExampleImages.m</a>&nbsp;script. The extracted data can be reviewed using the&nbsp;<a href="https://zenodo.org/api/files/2f2192f4-a05c-4969-ba0a-4f235b837709/ReviewExtractedStacks.m">ReviewExtractedStacks.m</a>&nbsp;script.</p> <p>Additional data, stored in separate repository due to size limits:&nbsp;<a href="https://doi.org/10.5281/zenodo.8023349">https://doi.org/10.5281/zenodo.8023349</a></p>