Sripts for figures for:
Cohesin forms fountains at active enhancers in C. elegans Bolaji N. Lüthi, Jennifer I. Semple, Anja Haemmerli, Saurabh Thapliyal, Kalyan Ghadage, Klement Stojanovski, Dario D’Asaro, Moushumi Das, Nick Gilbert, Dominique A. Glauser, Benjamin Towbin, Daniel Jost, Peter Meister bioRxiv 2023.07.14.549011; doi: https://doi.org/10.1101/2023.07.14.549011
[now accepted in Nature Communications]
Initial processing of the data was performed with scripts in https://github.com/CellFateNucOrg/Bolaji_Luthi_RNAseq
Results of the differential gene expression analysis (DESeq2) used for plotting are in ./RNAseq_DGE
Results of the differential transcript expression analysis (Sleuth) used for plotting are in ./RNAseq_DTE
Some additional data files for plotting are available in ./fountains and ./publicData directories. Some datafiles were not included as they were too large, and can be obtained upon request.
Scripts are numbered by figure numbers in main text (Fig) and supplementary data (FigS).
Scripts for HiC fragment-level mapping (FigS9) can be found in fragmentMapping directory.
Scripts for quantifying ASI neuron images as well as generating unlabelled images for blind scoring are in ./skn1ImageAnalysis folder. ASI signal intensity results in are ./imageStats subfolder and blind scoring of ASI phenotype is in ./scoring folder.