standards > terminology artifact > DOI:10.25504/FAIRsharing.haxp7g


ready Feature Annotation Location Description Ontology

Abbreviation: FALDO


General Information
The Feature Annotation Location Description Ontology (FALDO), to describe the positions of annotated features on linear and circular sequences for data resources represented in RDF and/or OWL. FALDO can be used to describe nucleotide features in sequence records, protein annotations, and glycan binding sites, among other features in coordinate systems of the aforementioned “omics” areas. Using the same data format to represent sequence positions that are independent of file formats allows us to integrate sequence data from multiple sources and data types.

Homepage http://biohackathon.org/resource/faldo

Developed in Italy , Japan , Netherlands , Switzerland , United Kingdom , United States

Created in 2012

Taxonomic range







How to cite this record FAIRsharing.org: FALDO; Feature Annotation Location Description Ontology; DOI: https://doi.org/10.25504/FAIRsharing.haxp7g; Last edited: Feb. 22, 2018, 2:42 p.m.; Last accessed: Nov 13 2018 7:48 p.m.


This record is maintained by jerven

Record added: Jan. 16, 2017, 2:40 p.m.
Record updated: Dec. 8, 2017, 7:34 p.m. by The FAIRsharing Team.

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Support

General

help https://groups.google.com/forum/#!forum/ ...
online documentation GitHub Issues at OBF Faldo

Additional Information

Contact Jerven Bolleman

External Links

Bioportal http://bioportal.bioontology.org/ontologies/FALDO

Tools

    No tools defined


Schemas

No XSD schemas defined


Access / Retrieve Data

Conditions of Use

Applies to: Data use




Publications

FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation.

Bolleman JT,Mungall CJ,Strozzi F,Baran J,Dumontier M,Bonnal RJ,Buels R,Hoehndorf R,Fujisawa T,Katayama T,Cock PJ
J Biomed Semantics 2016

View Paper (PubMed) View Publication

FALDO Ontology Display

View in BioPortal.


Disclaimer: This widget assumes the availability of the ontology resources in the NCBO BioPortal.


Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

Identifier Schemas

No identifier schema standards defined


Implementing Databases (2)
Ensembl
The Ensembl project is based at the European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI). It provides one of the most comprehensive and integrated resources of genomic data, which can be accessed through the web (www.ensembl.org) and through BioMart, FTP, Perl APIs, REST API and MySQL queries.
UniProt Knowledgebase
The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins, with accurate, consistent and rich annotation. In addition to capturing the core data mandatory for each UniProtKB entry (mainly, the amino acid sequence, protein name or description, taxonomic data and citation information), as much annotation information as possible is added. This includes widely accepted biological ontologies, classifications and cross-references, and clear indications of the quality of annotation in the form of evidence attribution of experimental and computational data. The UniProt Knowledgebase consists of two sections: a reviewed section containing manually-annotated records with information extracted from literature and curator-evaluated computational analysis (aka "UniProtKB/Swiss-Prot"), and an unreviewed section with computationally analyzed records that await full manual annotation (aka "UniProtKB/TrEMBL").

Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

  • This record is maintained by jerven