Nanoscale Dynamics of Enhancer-Promoter Interactions during Exit from Pluripotency

Gabriela Stumberger¹, David Hörl¹, Dimitra Tsouraki², Clemens Steinek¹, A. Marieke Oudelaar², Heinrich Leonhardt¹, Hartmann Harz¹

¹ Human Biology & BioImaging, Faculty of Biology, Ludwig-Maximilians-Universität München, Munich, Germany

² Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany

Zenodo: Publication:

This repository contains Jupyter Notebooks used to analyse the images in the submitted manuscript.

Folder subscripts contains scripts used in the workflows below.

Folder pairwise_analysis_nd2 contains the workflow used to analyse confocal images connected to figure 1.

Folder multiway_analysis_msr contains the workflow used to analyse the sted images connected to figure 2.

Folder RNA_DNA_FISH_analysis contains the workflow used to analyse the images connected to figure 3.

Folder plots_analyses contains notebooks for various analyses, mainly quality control of data, connected to supplementary figures 3 & 4.