Union Chromatin Loops in H1-hESC and HFFc6

This dataset contains the union set of chromatin loops annotated for two reference 4D Nucleome (4DN) cell lines: human embryonic stem cells (H1-hESC) and immortalized fibroblasts (HFFc6). Each file represents loops identified through the integration of multiple 3D genome mapping platforms, including Hi-C, Micro-C, CTCF ChIA-PET, RNAPII ChIA-PET, and H3K4me3 PLAC-Seq. Each file is a tab-delimited BEDPE file with 7 columns: chrom1 — Chromosome name of the first loop anchor start1 — Start coordinate of the first loop anchor (0-based) end1 — End coordinate of the first loop anchor chrom2 — Chromosome name of the second loop anchor start2 — Start coordinate of the second loop anchor (0-based) end2 — End coordinate of the second loop anchor platforms — Comma-separated list of platforms in which the loop was originally detected All coordinates are based on the GRCh38/hg38 human genome assembly. Loops were identified using a hybrid loop-calling framework combining Peakachu with platform-specific algorithms, as detailed in the 4D Nucleome Consortium marker paper. If you use these data, please cite: 4D Nucleome Consortium et al. An integrated view of the structure and function of the human 4D nucleome. Nature. 2025.