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Encyclopedia of DNA Elements: ENCODE

IDNBDC common database IDs, which should be written in parentheses if there are multiple titles, such as Japanese and English. NBDC02044
Database nameName of the database Encyclopedia of DNA Elements
Alternative nameAlternative name of the database ENCODE
URLURL of the database https://www.encodeproject.org/
Database maintenance siteSite maintaining the database Genomics Institute, University of California
Country/RegionCountry or region name where the database maintenance site is located United States
Database descriptionDatabase descirption The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. ENCODE investigators employ a variety of assays and methods to identify functional elements. The discovery and annotation of gene elements is accomplished primarily by sequencing a diverse range of RNA sources, comparative genomics, integrative bioinformatic methods, and human curation. Regulatory elements are typically investigated through DNA hypersensitivity assays, assays of DNA methylation, and immunoprecipitation (IP) of proteins that interact with DNA and RNA, i.e., modified histones, transcription factors, chromatin regulators, and RNA-binding proteins, followed by sequencing.
Organism(s) coveredNCBI Taxonomy names and IDs covered by the database Caenorhabditis (6237), Drosophila (7215), Homo sapiens (9606), Mus musculus (10090)
Tag - TargetTag to indicate targets for this database such as genome and protein
Genome/Gene
cDNA/EST
Genetic variation
Epigenetics
DNA
RNA
Protein
Carbohydrate
Lipid
Metabolite
Chemical compound
Drug
Cell/Organelle
Organism
Health/Disease
Tag - Information typeTag to indicate information types for this database such as sequence and structure
Phenotype
Bioresource
Method
Ontology/Terminology/Nomenclature
Environment
Sequence
3D structure
Chemical structure
Expression
Localization
Geographic Distribution
Interaction/Pathway
Taxonomy
Classification
Image/Movie
Bibliography/Documents
Portal
Repository
Reference(s) - PubMed ID/DOIPubMed IDs/DOI for papers related to the database
PubMed ID:23193274
DOI:-
PubMed ID:22075998
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PubMed ID:21037257
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PubMed ID:19920125
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PubMed ID:17166863
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Language(s)Languages in which the contents of the database are displayed English
Operational statusOperational status for the database Active
Link(s) to Downloadable dataLinks to downloadable data ―
Link(s) to MetaData of downloadable dataLinks to metadata of downloadable data ―
Link(s) to Terms of useLinks to terms of use of downloadable data ―
Link(s) to "How to use" ―
Contact information of database ―
Link(s) to API / SPARQL endpoint ―
Link to LSDB ArchiveLink to LSDB Archive ―
Link to MEDALS Database listLink to MEDALS Database list ―
Link to TogoTVLink to TogoTV ―
Link to FAIRsharingLink to FAIRsharing https://fairsharing.org/10.25504/FAIRsharing.v0hbjs
Similar databasesDatabases that are similar to this database.
Record maintainerRecord maintainer See the corresponding part in the FAIRsharing record
Record sourceOrganization that originally created the record
Date of creation of this recordDate of creation of this English record 2019-03-28
Last update date of this recordLast update date of this English record 2024-07-28
Record license Creative Commons Attribution and Share-alike (CC-BY-SA) International 4.0 license