Hi-TrAC reveals fine-scale chromatin structures organized by transcription factors
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA746963 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR15150400_1.fastq.gz | Fastqsanger.gz | |||
| SRR15150400_2.fastq.gz | Fastqsanger.gz | |||
| SRR15150401_1.fastq.gz | Fastqsanger.gz | |||
| SRR15150401_2.fastq.gz | Fastqsanger.gz | |||
| SRR15150402_1.fastq.gz | Fastqsanger.gz |
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Project description:The three-dimensional genomic structure plays a critical role in gene expression, cellular differentiation, and pathological conditions. It is pivotal to elucidate fine-scale chromatin architectures, especially interactions of regulatory elements, to understand the temporospatial regulation of gene expression. In this study, we report Hi-TrAC as a proximity ligation-free, robust, and sensitive technique to profile genome-wide chromatin interactions at high-resolution among regulatory elements. Hi-TrAC detects chromatin looping among accessible regions at single nucleosome resolution. With almost half-million identified loops, we reveal a comprehensive interaction network of regulatory elements across the genome. After integrating chromatin binding profiles of transcription factors, we discover that cohesin complex and CTCF are responsible for organizing long-range chromatin loops, related to domain formation; whereas ZNF143 and HCFC1 are involved in structuring short-range chromatin loops between regulatory elements, which directly regulate gene expression. Thus, we introduce a methodology to identify a delicate and comprehensive network of cis-regulatory elements, revealing the complexity and a division of labor of transcription factors in organizing chromatin loops for genome organization and gene expression.
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