title: Principles of metadata organization at the ENCODE data coordination center.
abstract: The Encyclopedia of DNA Elements (ENCODE) Data Coordinating Center (DCC) is responsible for organizing, describing and providing access to the diverse data generated by the ENCODE project. The description of these data, known as metadata, includes the biological sample used as input, the protocols and assays performed on these samples, the data files generated from the results and the computational methods used to analyze the data. Here, we outline the principles and philosophy used to define the ENCODE metadata in order to create a metadata standard that can be applied to diverse assays and multiple genomic projects. In addition, we present how the data are validated and used by the ENCODE DCC in creating the ENCODE Portal (https://www.encodeproject.org/). Database URL: www.encodeproject.org.
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Eurie L
authors.initials: EL
authors.lastname: Hong
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Cricket A
authors.initials: CA
authors.lastname: Sloan
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Esther T
authors.initials: ET
authors.lastname: Chan
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Jean M
authors.initials: JM
authors.lastname: Davidson
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Venkat S
authors.initials: VS
authors.lastname: Malladi
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: J Seth
authors.initials: JS
authors.lastname: Strattan
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Benjamin C
authors.initials: BC
authors.lastname: Hitz
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Idan
authors.initials: I
authors.lastname: Gabdank
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Aditi K
authors.initials: AK
authors.lastname: Narayanan
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Marcus
authors.initials: M
authors.lastname: Ho
authors.affiliation: Center for Biomolecular Science and Engineering Santa Cruz, University of California, Santa Cruz, CA, USA.
authors.forename: Brian T
authors.initials: BT
authors.lastname: Lee
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Laurence D
authors.initials: LD
authors.lastname: Rowe
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Timothy R
authors.initials: TR
authors.lastname: Dreszer
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Greg R
authors.initials: GR
authors.lastname: Roe
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Nikhil R
authors.initials: NR
authors.lastname: Podduturi
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Forrest
authors.initials: F
authors.lastname: Tanaka
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA.
authors.forename: Jason A
authors.initials: JA
authors.lastname: Hilton
authors.affiliation: Department of Genetics, Stanford University School of Medicine Department of Genetics, Stanford, CA, USA cherry@stanford.edu.
authors.forename: J Michael
authors.initials: JM
authors.lastname: Cherry
mesh_terms: D000465:Algorithms; D000818:Animals; D017173:Caenorhabditis elegans; D019295:Computational Biology / Q000379:methods* / Q000592:standards; D004247:DNA / Q000235:genetics*; D003625:Data Collection; D030541:Databases, Genetic; D004331:Drosophila melanogaster; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D051379:Mice; D009696:Nucleic Acids / Q000235:genetics; D011786:Quality Control; D015203:Reproducibility of Results; D016415:Sequence Alignment
chemical_list: D009696:Nucleic Acids; D004247:DNA