Systematic mapping of chromatin state landscapes during mouse development
David U. Gorkin,
Ah Young Lee,
J. Seth Strattan,
Jean M. Davidson,
Sarah Y. Afzal,
Jennifer A. Akiyama,
Catherine S. Pickle,
Tyler H. Garvin,
Quan T. Pham,
Anne N. Harrington,
Brandon J. Mannion,
Elizabeth A. Lee,
Brian A. Williams,
J. Michael Cherry,
Joseph R. Ecker,
Diane E. Dickel,
Len A Pennacchio,
Posted 21 Jul 2017
bioRxiv DOI: 10.1101/166652 (published DOI: 10.1038/s41586-020-2093-3)
Posted 21 Jul 2017
Embryogenesis requires epigenetic information that allows each cell to respond appropriately to developmental cues. Histone modifications are core components of a cells epigenome, giving rise to chromatin states that modulate genome function. Here, we systematically profile histone modifications in a diverse panel of mouse tissues at 8 developmental stages from 10.5 days post conception until birth, performing a total of 1,128 ChIP-seq assays across 72 distinct tissue-stages. We combine these histone modification profiles into a unified set of chromatin state annotations, and track their activity across developmental time and space. Through integrative analysis we identify dynamic enhancers, reveal key transcriptional regulators, and characterize the role of chromatin-based repression in developmental gene regulation. We also leverage these data to link enhancers to putative target genes, revealing connections between coding and non-coding sequence variation in disease etiology. Our study provides a compendium of resources for biomedical researchers, and achieves the most comprehensive view of embryonic chromatin states to date.
- Downloaded 5,051 times
- Download rankings, all-time:
- Site-wide: 3,129
- In genomics: 271
- Year to date:
- Site-wide: 34,122
- Since beginning of last month:
- Site-wide: 23,255
Downloads over time
Distribution of downloads per paper, site-wide
- 27 Nov 2020: The website and API now include results pulled from medRxiv as well as bioRxiv.
- 18 Dec 2019: We're pleased to announce PanLingua, a new tool that enables you to search for machine-translated bioRxiv preprints using more than 100 different languages.
- 21 May 2019: PLOS Biology has published a community page about Rxivist.org and its design.
- 10 May 2019: The paper analyzing the Rxivist dataset has been published at eLife.
- 1 Mar 2019: We now have summary statistics about bioRxiv downloads and submissions.
- 8 Feb 2019: Data from Altmetric is now available on the Rxivist details page for every preprint. Look for the "donut" under the download metrics.
- 30 Jan 2019: preLights has featured the Rxivist preprint and written about our findings.
- 22 Jan 2019: Nature just published an article about Rxivist and our data.
- 13 Jan 2019: The Rxivist preprint is live!