Supporting data for "Chromatin conformation and histone modification profiling across human kidney anatomic regions"

Here we deposit supporting data for our manuscript entitled "Chromatin conformation and histone modification profiling across human kidney anatomic regions".

donor_info.pdf: Additional clinical information of the donor involved in the study

Large zip files with names starting as "hic": Juicer Hi-C outputs aligned with hg38 genome

Note: hg19 alignment outputs are available at GEO.

hg19_loop_domain.zip: Hi-C chromatin contact domain finding results with Arrowhead and chromatin loop finding results with HiCCUPs (implemented in Juicer tools), aligned with hg19 genome

hg38_loop_domain.zip: Hi-C chromatin contact domain finding results with Arrowhead and chromatin loop finding results with HiCCUPs (implemented in Juicer tools), aligned with hg38 genome

CUTRUN_peak_hg19.tar.gz: CUT&RUN peaks.stringent.bed data outputs generated by hg19 alignment

CUTRUN_peak_hg38.tar.gz: CUT&RUN peaks.stringent.bed data outputs generated by hg38 alignment

CUTRUN_bigwig_hg38.tar.gz: CUT&RUN bigwig outputs generated by hg38 alignment

Note: hg19 alignment outputs are available at GEO.

CUTRUN_overlapped_peaks.xlsx: Overlaps between H3K27me3 and H3K4me3 in each anatomical region. Peaks were loaded from ‘.peaks.stringent.bed’ files in R and converted to GRanges objects using package ‘GenomicRanges’. R function ‘intersect’ was used to calculate the overlap between two GRanges objects, represented as each row in the table.

Here we list the details of overlaps between H3K27me3 and H3K4me3 in each anatomical region, as well as overlaps for each of the histone markers across anatomical regions.