HUGIn is designed to explore chromatin organizations across multiple human cell lines and primary tissues. HUGIn incorporates data from multiple sources including genetic variants (SNPs), chromatin organization features (including topologically associating domain (TAD) boundaries, frequently interacting regions (FIRE)s, and long-range chromatin interactions from the analysis of Hi-C data) gene expression (from tissue or cell line specific RNA-Seq data), and multiple epigenetic datasets (including information on typical and super enhancers, CTCF binding sites, H3K4me1, H3K4me3, H3K27ac, H3K36me3, H3K27me3 and H3K9me3 peaks). Current data are all mapped to the reference genome hg19 (Genome Reference Consortium GRCh37). For more details and a complete tutorial, please see our Tutorial page.
See data description here.
HiC:
| Name | Bin Size (in KB) | Gene Expression | TAD | Enhancer | FIRe | ChIP-Seq | CTCF | PMID | |
|---|---|---|---|---|---|---|---|---|---|
| 1 | Adrenal | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 2 | Adult Cortex | 10 | 1 | 0 | 0 | 0 | 0 | 0 | https://doi.org/10.1101/406330 |
| 3 | Aorta | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 4 | Bladder | 40 | 1 | 1 | 1 | 1 | 0 | 0 | 27851967 |
| 5 | Dorsolateral Prefrontal Cortex | 40 | 1 | 1 | 0 | 1 | 1 | 0 | 27851967 |
| 6 | Fetal Cortex | 10 | 1 | 0 | 0 | 0 | 0 | 0 | https://doi.org/10.1101/406330 |
| 7 | Fetal Lung Fibroblast Cell | 40 | 1 | 1 | 1 | 1 | 1 | 1 | 27851967 |
| 8 | Hippocampus | 40 | 1 | 1 | 0 | 1 | 1 | 0 | 27851967 |
| 9 | Human Embryonic Stem Cell | 40 | 1 | 1 | 1 | 1 | 1 | 1 | 27851967 |
| 10 | Left Ventricle | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 11 | Liver | 40 | 1 | 1 | 0 | 1 | 1 | 0 | 27851967 |
| 12 | Lung | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 13 | Lymphoblastoid (Rao 2014) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 25497547 |
| 14 | Lymphoblastoid (Schmitt.) | 40 | 1 | 1 | 1 | 1 | 1 | 1 | 27851967 |
| 15 | Macrophages (Phanstiel) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28890333 |
| 16 | Mesenchymal Cell | 40 | 1 | 1 | 0 | 1 | 1 | 1 | 27851967 |
| 17 | Mesendoderm Cell | 40 | 1 | 1 | 0 | 1 | 1 | 1 | 27851967 |
| 18 | Monocytes (Phanstiel) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28890333 |
| 19 | Neural Progenitor | 40 | 1 | 1 | 0 | 1 | 1 | 1 | 27851967 |
| 20 | Ovary | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 21 | Pancreas | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 22 | Psoas | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 23 | Right Ventricle | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 24 | Small Bowel | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 25 | Spleen | 40 | 1 | 1 | 1 | 1 | 1 | 0 | 27851967 |
| 26 | Trophoblast-like Cell | 40 | 1 | 1 | 0 | 1 | 1 | 1 | 27851967 |
HiChIP:
| Name | Bin Size (in KB) | Gene Expression | TAD | Enhancer | FIRe | ChIP-Seq | CTCF | PMID | |
|---|---|---|---|---|---|---|---|---|---|
| 1 | Excitatory neurons (H3K4me3) | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 33057195 |
| 2 | HCASMC (coronary artery smooth muscle; H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 3 | Intermediate Progenitor cells (H3K4me3) | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 33057195 |
| 4 | Interneurons (H3K4me3) | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 33057195 |
| 5 | Leukemia K562 (H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 6 | Lymphoblastoid (GM12878; H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 7 | My-La (H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 8 | Naive T (CTCF) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 9 | Naive T (H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 10 | Radial glia (H3K4me3) | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 33057195 |
| 11 | T-helper 17 (H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
| 12 | T-reg (H3K27ac) | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 28945252 |
PC-HiC
| Name | Has Read Count | Gene Expression | TAD | Enhancer | FIRe | ChIP-Seq | CTCF | PMID | |
|---|---|---|---|---|---|---|---|---|---|
| 1 | Activated Total CD4+ T Cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 2 | Adrenal Gland (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 3 | Aorta (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 4 | Astrocyte | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 31367015 |
| 5 | Bladder (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 6 | Cardiomyoctes (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 7 | Dorsolateral Prefrontal Cortex (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 8 | Endothelial Precursors | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 9 | Erythroblasts | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 10 | Esophagus (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 11 | Fat (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 12 | Fetal Thymus | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 13 | Fibroblast (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 14 | Gastric (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 15 | Hippocampus (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 16 | Human Embryonic Stem Cell (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 17 | Left Ventricle (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 18 | Liver (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 19 | Lung (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 20 | Lymphoblastoid (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 21 | Macrophages M0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 22 | Macrophages M1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 23 | Macrophages M2 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 24 | Megakaryocytes | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 25 | Mesenchymal Stem Cell (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 26 | Mesendoderm (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 27 | Monocytes | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 28 | Naive B cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 29 | Naive CD4+ T Cells | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 30 | Naive CD8+ T Cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 31 | Neural Progenitor Cell (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 32 | Neutrophils | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 33 | Non-activated Total CD4+ T Cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 34 | Ovary (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 35 | Pancreas (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 36 | Psoas (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 37 | Right Atrium (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 38 | Right Ventricle (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 39 | Sigmoid Colon (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 40 | Small Bowel (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 41 | Spleen (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 42 | Thymus (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 43 | Total B cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 44 | Total CD4+ T Cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 45 | Total CD8+ T Cells | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 27863249 |
| 46 | Trophoblast (Jung et al.) | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 31501517 |
| 47 | iPSC-derived Hippocampal DG-like Neuron | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 31367015 |
| 48 | iPSC-derived Lower Motor Neuron | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 31367015 |
| 49 | iPSC-induced Excitatory Neuron | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 31367015 |