Expanded encyclopaedias of DNA elements in the human and mouse genomes.

Moore, Jill E; Purcaro, Michael J; Pratt, Henry E; Epstein, Charles B; Shoresh, Noam; Adrian, Jessika; Kawli, Trupti; Davis, Carrie A; Dobin, Alexander; Kaul, Rajinder; Halow, Jessica; Van Nostrand, Eric L; Freese, Peter; Gorkin, David U; Shen, Yin; He, Yupeng; Mackiewicz, Mark; Pauli-Behn, Florencia; Williams, Brian A; Mortazavi, Ali; ... (2020). Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature, 583(7818), pp. 699-710. Springer Nature 10.1038/s41586-020-2493-4

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The human and mouse genomes contain instructions that specify RNAs and proteins and govern the timing, magnitude, and cellular context of their production. To better delineate these elements, phase III of the Encyclopedia of DNA Elements (ENCODE) Project has expanded analysis of the cell and tissue repertoires of RNA transcription, chromatin structure and modification, DNA methylation, chromatin looping, and occupancy by transcription factors and RNA-binding proteins. Here we summarize these efforts, which have produced 5,992 new experimental datasets, including systematic determinations across mouse fetal development. All data are available through the ENCODE data portal (https://www.encodeproject.org), including phase II ENCODE1 and Roadmap Epigenomics2 data. We have developed a registry of 926,535 human and 339,815 mouse candidate cis-regulatory elements, covering 7.9 and 3.4% of their respective genomes, by integrating selected datatypes associated with gene regulation, and constructed a web-based server (SCREEN; http://screen.encodeproject.org) to provide flexible, user-defined access to this resource. Collectively, the ENCODE data and registry provide an expansive resource for the scientific community to build a better understanding of the organization and function of the human and mouse genomes.

Item Type:

Journal Article (Original Article)


04 Faculty of Medicine > Department of Haematology, Oncology, Infectious Diseases, Laboratory Medicine and Hospital Pharmacy (DOLS) > Clinic of Medical Oncology


600 Technology > 610 Medicine & health




Springer Nature




Rebeka Gerber

Date Deposited:

28 Aug 2020 15:10

Last Modified:

10 Mar 2021 19:30

Publisher DOI:


PubMed ID:


Additional Information:

Collaborator ENCODE Project Consortium: Johnson, Rory





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