About: An atlas of dynamic chromatin landscapes in mouse fetal development

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	An atlas of dynamic chromatin landscapes in mouse fetal development
Creator	Wang, Wei Li, Bin Zhang, Bo Ding, Bo Huang, Hui Han, Williams, Brian Ecker, Joseph Amrhein, Henry Dickel, Diane Gorkin, David He, Yupeng Lee, Ah Lee, Elizabeth Pennacchio, Len Ren, Bing Shen, Yin Trout, Diane Visel, Axel Zhao, Yuan Pham, Quan Cherry, J Chiou, Joshua Gaulton, Kyle Preissl, Sebastian Afzal, Veena Akiyama, Jennifer Barozzi, Iros Chee, Sora Davidson, Jean Fukuda-Yuzawa, Yoko Garvin, Tyler Harrington, Anne Kato, Momoe Mannion, Brandon Novak, Catherine Plajzer-Frick, Ingrid Qiu, Yunjiang Wang, Mengchi Wildberg, Andre Yang, Hongbo Zhang, Yanxiao Jee, Yun Strattan, J
source	PMC
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.
has issue date	2020-07-29(xsd:dateTime)
bibo:doi	10.1038/s41586-020-2093-3
bibo:pmid	32728240
has license	cc-by
sha1sum (hex)	252ca42a8563e8a49ab610af58b153b147462788
schema:url	https://doi.org/10.1038/s41586-020-2093-3
resource representing a document's title	An atlas of dynamic chromatin landscapes in mouse fetal development
has PubMed Central identifier	PMC7398618
has PubMed identifier	32728240
schema:publication	Nature
resource representing a document's body	covid:252ca42a8563e8a49ab610af58b153b147462788#body_text
is schema:about of	named entity 'chromatin immunoprecipitation' named entity 'enhancers' named entity 'gene' named entity 'days' named entity 'genomic' named entity 'Here' named entity 'key' named entity 'sequencing' named entity 'conception' named entity 'leveraged' named entity 'ENCODE' named entity 'The' named entity 'DNA' named entity 'develop' named entity 'Open access' named entity 'chromatin' named entity 'ATAC-seq' named entity 'assay' named entity 'fetal development' named entity 'transcriptional regulators' named entity 'transposase' named entity 'chromatin' named entity 'chromatin immunoprecipitation' named entity 'ChIP-seq' named entity 'chromatin' named entity 'chromatin' named entity 'sequence variants' named entity 'fetus' named entity 'Open access' named entity 'enhancers' named entity 'ENCODE' named entity 'systematically' named entity 'sequence variants' named entity 'developmental stages' named entity 'mouse fetal development' named entity '10.5' named entity 'chromatin accessibility' named entity 'chromatin'

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