HL7 Terminology (THO)
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This page is part of the HL7 Terminology (v6.0.1: Release) based on FHIR (HL7® FHIR® Standard) v5.0.0. This is the current published version in its permanent home (it will always be available at this URL). For a full list of available versions, see the Directory of published versions

NamingSystem: Sequence Ontology

Official URL: http://terminology.hl7.org/NamingSystem/SO Version: 1.0.0
Active as of 2023-12-11 Responsible: Sequence Ontology Computable Name: SO

“The Sequence Ontology is a set of terms and relationships used to describe the features and attributes of biological sequence. SO includes different kinds of features which can be located on the sequence. Biological features are those which are defined by their disposition to be involved in a biological process.”

“The Sequence Ontologies are provided as a resource to the biological community. They have the following obvious uses:

  • To provide for a structured controlled vocabulary for the description of primary annotations of nucleic acid sequence, e.g. the annotations shared by a DAS server (BioDAS, Biosapiens DAS), or annotations encoded by GFF3.”

  • To provide for a structured representation of these annotations within databases. Were genes within model organism databases to be annotated with these terms then it would be possible to query all these databases for, for example, all genes whose transcripts are edited, or trans-spliced, or are bound by a particular protein. One such genomic database is Chado.

  • To provide a structured controlled vocabulary for the description of mutations at both the sequence and more gross level in the context of genomic databases.”

“The Sequence Ontology is part of OBO. It has close links to other ontology projects such as the RNAO consortium, and the Biosapiens polypeptide features.”

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Generated Narrative: NamingSystem SO

Summary

Defining URLhttp://terminology.hl7.org/NamingSystem/SO
Version1.0.0
NameSO
TitleSequence Ontology
Statusactive
Definition

"The Sequence Ontology is a set of terms and relationships used to describe the features and attributes of biological sequence. SO includes different kinds of features which can be located on the sequence. Biological features are those which are defined by their disposition to be involved in a biological process."

"The Sequence Ontologies are provided as a resource to the biological community. They have the following obvious uses:

  • To provide for a structured controlled vocabulary for the description of primary annotations of nucleic acid sequence, e.g. the annotations shared by a DAS server (BioDAS, Biosapiens DAS), or annotations encoded by GFF3."

  • To provide for a structured representation of these annotations within databases. Were genes within model organism databases to be annotated with these terms then it would be possible to query all these databases for, for example, all genes whose transcripts are edited, or trans-spliced, or are bound by a particular protein. One such genomic database is Chado.

  • To provide a structured controlled vocabulary for the description of mutations at both the sequence and more gross level in the context of genomic databases."

"The Sequence Ontology is part of OBO. It has close links to other ontology projects such as the RNAO consortium, and the Biosapiens polypeptide features."

The content can be browsed here

The content can be downloaded here

For information on contributing, please see here

To request a term or register feedback, see here

PublisherSequence Ontology

Identifiers

TypeValuePreferredPeriodComment
URIhttp://www.sequenceontology.orgtrue2021-06-07 --> (ongoing)This is the URL as specified by the terminology owner, and is considered authoritative.

History

DateActionCustodianAuthorComment
2024-03-02createHTAJessica BotaAdd Sequence Ontology per HTA; up-488