Integrative analysis of the 3D genome and epigenome in mouse embryonic tissues.

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Tác giả: Armen Abnousi, Ziyin Chen, Diane E Dickel, Rongxin Fang, David U Gorkin, Ming Hu, Rong Hu, Ivan Juric, Lindsay Lee, Yang E Li, Shreya Mishra, Len A Pennacchio, Yunjiang Qiu, Ramya Raviram, Bing Ren, Anthony D Schmitt, Axel Visel, Miao Yu, Nathan R Zemke, Yanxiao Zhang, Yuan Zhao

Ngôn ngữ: eng

Ký hiệu phân loại: 809.008 History and description with respect to kinds of persons

Thông tin xuất bản: United States : Nature structural & molecular biology , 2025

Mô tả vật lý:

Bộ sưu tập: NCBI

ID: 720317

While a rich set of putative cis-regulatory sequences involved in mouse fetal development have been annotated recently on the basis of chromatin accessibility and histone modification patterns, delineating their role in developmentally regulated gene expression continues to be challenging. To fill this gap, here we mapped chromatin contacts between gene promoters and distal sequences across the genome in seven mouse fetal tissues and across six developmental stages of the forebrain. We identified 248,620 long-range chromatin interactions centered at 14,138 protein-coding genes and characterized their tissue-to-tissue variations and developmental dynamics. Integrative analysis of the interactome with previous epigenome and transcriptome datasets from the same tissues revealed a strong correlation between the chromatin contacts and chromatin state at distal enhancers, as well as gene expression patterns at predicted target genes. We predicted target genes of 15,098 candidate enhancers and used them to annotate target genes of homologous candidate enhancers in the human genome that harbor risk variants of human diseases. We present evidence that schizophrenia and other adult disease risk variants are frequently found in fetal enhancers, providing support for the hypothesis of fetal origins of adult diseases.
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