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Ontologies
BAGO
BioAGgressor Ontology (BAGO)
OWL
Last submission date January 30, 2025

General information

Abstract

The French ANR project "Data to Knowledge in Agronomy and Biodiversity" D2KAB (www.d2kab.org) has created a framework to turn agronomy and biodiversity data into knowledge –semantically described, interoperable, actionable, open– and investigate scientific methods and tools to exploit this knowledge for applications in science & agriculture. One of the five driving scenarii of D2KAB was to publish on the Web of Linked data an archive of French agricultural alert bulletins, called Plant Health Bulletins (Bulletins de Santé du Végétal). To annotate the bulletins using crop diseases and pests, we need a new semantic resource. Several ontologies and knowledge graphs already exist on the subject, but they do not cover all our needs. We have therefore developed a new ontology, "BioAGgressor Ontology" (BAGO), reusing elements from existing ontologies as far as possible. This new ontology was developed using the LOT methodology in partnership with 4 experts in agriculture, entomology and plant disease.

Description

This ontology and related knowledge graph was build during the D2KAB project. The goal is to model all the living organisms involved in cultivated plant disease appearance. The ontology and its documentation represent the point of view of some french researchers from differents intstitutions., This ontology and related knowledge graph was build during the D2KAB project. The goal is to model all the living organisms involved in cultivated plant disease appearance. The ontology and its documentation represent the point of view of some french researchers from differents institutions., This ontology and associated knowledge graphs were build during the D2KAB project. The ontology goal is to model all the living organisms involved in cultivated plant disease appearance. The ontology and its documentation represent the point of view of some french researchers from differents institutions (INRAE, Elzeard, Acta, IFV).
Initial created on July 8, 2024. For additional information, contact Catherine Roussey (catherine.roussey@inrae.fr).

Languages

Categories and subjects

Agri Prod
Anim
Biodiv
Bota
Entom
Plant


Metrics

FAIR score
Beta

We could not collect the data from the fairness service

Ontology relations network

View of (bpm:viewOf) ×
Imports(omv:useImports) ×
Has equivalences with(door:isAlignedTo) ×
Generally related to or relies on(door:ontologyRelatedTo) ×
Backward compatible(omv:isBackwardCompatibleWith) ×
Incompatible(omv:isIncompatibleWith) ×
Comes from the same domain(door:comesFromTheSameDomain) ×
Similar to(door:similarTo) ×
Specializes(door:explanationEvolution) ×
Generalizes(voaf:generalizes) ×
Disparate modelling with(door:hasDisparateModelling) ×
Has part (has views)(dct:hasPart) ×
Used by(voaf:usedBy) ×
Translation(schema:workTranslation) ×
Translation of(schema:translationOfWork) ×

Submissions

Version
Modified Submitted
Actions

1.1

January 30, 2025 January 30, 2025

1.1

January 28, 2025

1.1

December 19, 2024

1.1

December 14, 2024

1.1

December 10, 2024

1.1

December 9, 2024

unknown

September 2, 2024

unknown

August 30, 2024

unknown

August 2, 2024

unknown

August 1, 2024

unknown

May 15, 2024
more...

Identifiers

URI

https://opendata.inrae.fr/bag-def
https://opendata.inrae.fr/bag-def
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Version IRI

https://opendata.inrae.fr/bag-def/1.1
https://opendata.inrae.fr/bag-def/1.1
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Other identifier

https://doi.org/10.57745/QOQFPN
https://doi.org/10.57745/QOQFPN
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AgroPortal URI

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

Views of BAGO

Knowledge Graph on BioAGgressor of Grapevine
This knowledge graph was build during the D2KAB project. The goal is to model all the living organisms involved in grapevine plant disease appearance. The graph and its documentation represent the point of view of some french researchers from differents institutions: French Institute of Vine and Grapevine (IFV), INRAE., The Knowledge Graph on BioAGgressor of GrapeVine (BAG-GV) was build during the D2KAB project. The goal is to model all the living organisms involved in grappevine disease appearance and pests. The graph and its documentation represent the point of view of some french researchers from differents institutions: French Institute of Vine and Grapevine (IFV)
ID https://opendata.inrae.fr/bag-def#Affection
https://opendata.inrae.fr/bag-def#Affection
https://agroportal.lirmm.fr/ontologies/BAGO/Affection
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Preferred name

Affection

Definitions
An affection is a set of information describing the situation where several agents compete with each other. An affecting agent harms the development of another identified agent (the affected one) by consuming resources similar to its own and often limited. Signs of the affection may be visible on the affected agent (retarded growth). The agents responsible for the affection may be brought into contact with the affected agent through one or more vectors.
Subject Author Type Created
No notes to display
ID http://purl.org/dc/terms/abstract
http://purl.org/dc/terms/abstract
https://agroportal.lirmm.fr/ontologies/BAGO/abstract
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Type http://www.w3.org/2002/07/owl#AnnotationProperty
ID https://opendata.inrae.fr/fcu-res/Usages_plantes_cultivees
https://opendata.inrae.fr/fcu-res/Usages_plantes_cultivees
https://agroportal.lirmm.fr/ontologies/BAGO/Usages_plantes_cultivees
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Add BAGO Web Widgets to your site
Jump to

Type a class name from BAGO 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 = "BAGO";</script>
                  <script src="quick_jump.js" type="text/javascript" charset="utf-8"></script>
      

For more help visit Widget Wiki


Autocomplete

Fill your form fields with classes from BAGO

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 a ontology (ontology id is acronym) 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://www.w3.org/1999/02/22-rdf-syntax-ns#List )
      • 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/concept in BAGO

    Copy the code below and paste it to your HTML page

    <iframe frameborder="0" src="/widgets/visualization?ontology=BAGO&class=http%3A%2F%2Fwww.w3.org%2F1999%2F02%2F22-rdf-syntax-ns%23List&apikey=YOUR_API_KEY"></iframe>
    

    For more help visit NCBO Widget Wiki


    Tree Widget

    Display class/concept hiearchy tree with a search field for ontology BAGO

    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: "BAGO"
      });
    
    

    You can also view a detailed demonstration

    For more help visit Widget Wiki