Chromatin conformation and histone modification profiling across human kidney anatomic regions [Hi-C]

Here, we leveraged our recently described high-yield nuclei extraction method and performed Hi-C and Cleavage Under Targets and Release Using Nuclease (CUT&RUN) sequencing of histone modifications (H3K4me3 and H3K27me3) in parallel on the kidney cortex, medulla and papilla samples dissected from the same donor. This site describes the Hi-C data. Hi-C was performed with the Arima-HiC kit (A510008, Arima Genomics). Hi-C library preparation was performed with the Arima Library Prep Kit v2 (A303011, Arima Genomics). CUT&RUN was performed with the CUTANA™ ChIC / CUT&RUN Kit v3. CUT&RUN library preparation was performed with the NEBNext® Ultra™ II DNA Library Prep Kit. All 6 dual-indexed Hi-C libraries and 18 dual-indexed CUT&RUN libraries were sequenced on a 300-cycle NovaSeq X Plus platform (Illumina).