Hi-C Unifying Genomic Interrogator

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.

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Hi-C Data Collected

Human Cell Lines

Human Primary Tissues

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References

  1. Martin JS, Xu Z, Reiner AP, Mohlke KL, Sullivan P, Ren B, Hu M, and Li Y. (2017) HUGIn: Hi-C Unifying Genomic Interrogator. Bioinformatics. doi: https://academic.oup.com/bioinformatics/article/3861336/HUGIn-Hi-C-Unifying-Genomic-Interrogator .
  2. Schmitt AD, Hu M, Jung I, Xu Z, Qiu Y, Tan CL, Li Y, Lin S, Lin Y, Barr CL and Ren B. (2016) A compendium of chromatin contact maps reveal spatially active regions in the human genome. Cell Reports. 17(8):2012-2059.
  3. Xu Z, Zhang G, Wu C, Li Y and Hu M. (2016) FastHiC: a fast algorithm to detect long-range chromosomal interactions from Hi-C data. Bioinformatics. 32(17): 2692-2695.
  4. Xu Z, Zhang G, Jin F, Chen M, Furey TS, Sullivan PF, Qin ZS, Hu M and Li Y. (2016) A hidden Markov random field based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data. Bioinformatics. 32(5): 650-656.
  5. Jin F, Li Y, Dixon JR, Selvaraj S, Ye Z, Lee AY, Yen CA, Schmitt AD, Espinoza CA and Ren B (2013) A high-resolution map of the three-dimensional chromatin interactome in human cells. Nature 503: 290-294.
  6. Ay F, Bailey TL and Noble WS (2014) Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts. Genome Research 24: 974-988.
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Questions or comments about HUGIn, please contact jsmartin at email.unc.edu.