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Ontology of Biological Attributes (OBA)
OWL
Last submission date January 15, 2025

General information

The Ontology of Biological Attributes (OBA) is a formalised, species-independent collection of interoperable phenotypic trait categories that is intended to fulfil a data integration role. OBA is a standardised representational framework for observable attributes that are characteristics of biological entities, organisms, or parts of organisms. It is collection of biological attributes (traits) covering all kingdoms of life. Interoperable with VT (vertebrate trait ontology) and TO (plant trait ontology). Extends PATO., A collection of biological attributes (traits) covering all kingdoms of life. Interoperable with VT (vertebrate trait ontology) and TO (plant trait ontology). Extends PATO.
Initial created on January 15, 2025. For additional information, contact Chris Mungall (cjmungall@lbl.gov).

Categories and subjects



Metrics

We have not yet calculated metrics for OBA

Submissions

Version
Modified Submitted
Actions

2025-01-14

January 15, 2025

2024-11-26

November 27, 2024

2024-09-12

September 24, 2024

2024-06-27

June 29, 2024

2024-05-13

May 14, 2024

2024-03-27

April 10, 2024
more...

Identifiers

URI

http://purl.obolibrary.org/obo/oba.owl
http://purl.obolibrary.org/obo/oba.owl
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Version IRI

http://purl.obolibrary.org/obo/oba/releases/2025-01-14/oba.owl
http://purl.obolibrary.org/obo/oba/releases/2025-01-14/oba.owl
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AgroPortal URI

https://agroportal.lirmm.fr/ontologies/OBA
https://agroportal.lirmm.fr/ontologies/OBA
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Visits

Views of OBA

No views available for OBA.

ID http://purl.obolibrary.org/obo/GO_0001677
http://purl.obolibrary.org/obo/GO_0001677
https://agroportal.lirmm.fr/ontologies/OBA/GO_0001677
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Preferred name

formation of translation initiation ternary complex

Subject Author Type Created
No notes to display
Subject Author Type Class Created
No notes to display
SO16138CD156CO_33810014OBOE2389PATO65851CO_35820652CO_3477820UO3908FPCD10GMM_P284OEEV178PPDO295XEO1804TRIPHASE3455FALDO88SIREN9432ncbo122394THESAGRO5457VOCGEO157CO_3672569ExternalMappings139773764CL230724GACS51699PSO18693
Add OBA Web Widgets to your site
Jump To

Type a class name from OBA and jump to it in AgroPortal

  • Download the quick_jump.js file and put it on your server.
  • Copy the code below and paste it to your HTML page
  • Note: If you would like to use Quick Jump across multiple ontologies
    • You can enter a comma-separated list of ontology ids
      var BP_ontology_id = "NCIt,SNOMEDCT";
    • You can set the variable to 'all' to search all ontologies in AgroPortal:
      var BP_ontology_id = "all";
  • To include definitions in the Jump To drop-down, add the following variable in Javascript:
    var BP_include_definitions = true;
  • In the code that you just pasted, make sure to change the path to the quick_jump.js file to point to the location where you put the file (relative to your HTML file)
    • For example, if you put the quick_jump.js file in the same directory as your HTML file, this is the code you would use:
      <div id="bp_quick_jump"></div>
                  <script type="text/javascript">
                      var BP_ontology_id = "OBA";</script>
                  <script src="quick_jump.js" type="text/javascript" charset="utf-8"></script>
      

For more help visit NCBO Widget Wiki


Autocomplete

Fill your form fields with classes from OBA

Example 1 (start typing the class name to get its full URI)

Example 2 (get the ID for a class)

Example 3 (get the preferred name for a class)

  • Download the form_complete.js file and put it on your server.
  • In the header for the page where you want the form field, include the form_complete.js In the header for the page where you want the form field, include the
  • On your form, for the fields where you want to use the class-selection widget, specify the field's class in the following format: bp_form_complete-{ontology_id_list}-{value}
    • For example, bp_form_complete-NCIT-uri will use NCI Thesaurus (ontology id is NCIT) and will put the class URI in the field after the user selects the class from the pull-down list.
      • Note: In addition to single ontology ids, you can use a list:
        bp_form_complete-NCIT,NCBITAXON-uri
      • OR use 'all' to search across all AgroPortal ontologies:
        bp_form_complete-all-uri
      • The autocomplete widget accesses ontology content from the latest version of the ontology.
    • You can use the following parameters to select which value will be placed into the user-visible input field:
      • uri Put the complete URI of the class (e.g., http://purl.obolibrary.org/obo/OBA_VT0004272 )
      • shortid put the short id of the class, as used in AgroPortal (e.g., "Common_Neoplasm");
      • name put the preferred name of the class (e.g., "Common Neoplasm");
  • In addition to the input element you defined, there are four hidden form elements that are created and then set when a user selects a class from the list. For example, if you create a field with this code:
      <input type="text" name="a" class="bp_form_complete-all-uri" size="100"/>
    The 'name' attribute is used to create the four following fields (note how the 'a' from the name attribute is appended to the id attribute):
    • <input type="hidden" id="a_bioportal_preferred_name">
    • <input type="hidden" id="a_bioportal_concept_id">
    • <input type="hidden" id="a_bioportal_ontology_id">
    • <input type="hidden" id="a_bioportal_full_id">
    • Additional parameters are documented on the NCBO Widget Wiki

    For more help visit NCBO Widget Wiki


    Visualization

    Display a visualization for a given class in OBA

    Copy the code below and paste it to your HTML page

    <iframe frameborder="0" src="/widgets/visualization?ontology=OBA&class=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBA_VT0004272&apikey=YOUR_API_KEY"></iframe>
    

    For more help visit NCBO Widget Wiki


    Tree Widget

    Display a class tree with a search field for OBA

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    Copy the code below and paste it to your HTML page

    <link rel="stylesheet" type="text/css" href="/widgets/jquery.ncbo.tree.css">
      <script src="/widgets/jquery.ncbo.tree-2.0.2.js"></script>
      <div id="widget_tree"></div>
      var widget_tree = $("#widget_tree").NCBOTree({
        apikey: "YOUR_API_KEY",
        ontology: "OBA"
      });
    
    

    You can also view a detailed demonstration

    For more help visit NCBO Widget Wiki