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

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 zebrafish embryos treated with the inhibitors JQ1 or flavopiridol. Samples were prepared and images were recorded by Süheyla Eroglu-Kayikci and Elisa Kämmer in Lennart Hilbert's laboratory, images were analyzed by Lennart Hilbert.

To analyse date data, the raw image data are first extracted into MatLab-native files using the MultiPosition_extraction_nd2.m script. The actual analysis is then carried out using the ClusterAnalysis.m script. Example microscopy images were produced using the ExampleImages.m script. The extracted data can be reviewed using the ReviewExtractedStacks.m script.

Additional data, stored in separate repository due to size limits: https://doi.org/10.5281/zenodo.8023349