DOI: 10.5281/zenodo.7460286
title: H4K20me3 is important for Ash1-mediated H3K36me3 and transcriptional silencing in facultative heterochromatin in a fungal pathogen

description: Normalized ChIP-seq datasets for visualization in IGV. The tracks contain means of pooled replicate datasets. ChIP-seq data were quality-filtered and adapters removed with trimmomatic v.0.39 (Bolger et al., 2014). Mapping was performed with bowtie2 v.2.4.4 (Langmead and Salzberg, 2012), and sorting and indexing with samtools v.1.9 (Li, 2011). Normalized coverage bigwig files and heatmaps were created with deeptools v.3.5.1 (Ramírez et al., 2016). Wiggletools v.1.2 and the UCSC Genome Browser tools were used to calculate means for replicates and converting wig to bigwig files. Reference genome file is modified from Goodwin et al., 2011. Chromosome 18 was removed from the genome as our reference isolate is missing chromosome 18. Gene annotation file was obtained from FungiDB (release 53) and is based on the annotation published by Grandaubert et al., 2015. In this version, we have added new ChIP-seq bw tracks for ∆ash1::ash1-gfp-V5 and ∆kmt5::kmt5 complementation experiments. All tracks coming from this experiment are labeled *_compl_exp_mean.bw. We also added ChIP peak files (peaks called with HOMER: Heinz et al., 2010) for H4K20me3, H3K36me3 and H3K27me3 in WT, ∆kmt5 and ∆ash1, as well as H3K36me3 peak files for Set2- and Ash1-mediated H3K36me3. We have also added bed files (500 bp windows) containing facultative heterochromatin clusters 1 (Zt09_500bp_K27filtered_K36_K20_cluster1.bed) and 2 (Zt09_500bp_K27filtered_K36_K20_cluster2.bed).
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