An atlas of dynamic chromatin landscapes in mouse fetal development.

Abstract:

:The Encyclopedia of DNA Elements (ENCODE) project has established a genomic resource for mammalian development, profiling a diverse panel of mouse tissues at 8 developmental stages from 10.5 days after conception until birth, including transcriptomes, methylomes and chromatin states. Here we systematically examined the state and accessibility of chromatin in the developing mouse fetus. In total we performed 1,128 chromatin immunoprecipitation with sequencing (ChIP-seq) assays for histone modifications and 132 assay for transposase-accessible chromatin using sequencing (ATAC-seq) assays for chromatin accessibility across 72 distinct tissue-stages. We used integrative analysis to develop a unified set of chromatin state annotations, infer the identities of dynamic enhancers and key transcriptional regulators, and characterize the relationship between chromatin state and accessibility during developmental gene regulation. We also leveraged these data to link enhancers to putative target genes and demonstrate tissue-specific enrichments of sequence variants associated with disease in humans. The mouse ENCODE data sets provide a compendium of resources for biomedical researchers and achieve, to our knowledge, the most comprehensive view of chromatin dynamics during mammalian fetal development to date.

journal_name

Nature

journal_title

Nature

authors

Gorkin DU,Barozzi I,Zhao Y,Zhang Y,Huang H,Lee AY,Li B,Chiou J,Wildberg A,Ding B,Zhang B,Wang M,Strattan JS,Davidson JM,Qiu Y,Afzal V,Akiyama JA,Plajzer-Frick I,Novak CS,Kato M,Garvin TH,Pham QT,Harrington AN

doi

10.1038/s41586-020-2093-3

subject

Has Abstract

pub_date

2020-07-01 00:00:00

pages

744-751

issue

7818

eissn

0028-0836

issn

1476-4687

pii

10.1038/s41586-020-2093-3

journal_volume

583

pub_type

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