diff --git a/README.md b/README.md new file mode 100644 index 0000000000000000000000000000000000000000..96feee2b010bc63591e665a48cc6535a86dc72e1 --- /dev/null +++ b/README.md @@ -0,0 +1,47 @@ +# SEM-DISNET + +## Purpose and scope + +The purpose of the SEM-DISNET ontology is to develop a semantic knowledge base around the biomedical concepts related to diseases present in DISNET +database. This ontology would represent the information gathered in the DISNET4 database about biomedical entities and the associations between them. + +The scope or range of SEM-DISNET included: +- **Biomedical concepts:** Disease, drug, gene, protein, target, variant, pathway, organism, phenotype. +- **Associations of concepts:** Relationships between two concepts, whereas therapeutic, marker, interaction, among others. + +## Vocabulary development + +This ontology is developed following the guidelines provided by the [LOT methodology](https://lot.linkeddata.es/). + +## Requirements + +The requirements used to validate the ontology were extracted from: + + + + +## Ontology model + +SEM-DISNET ontology diagram shows an overview of the Classes and their principal attributes, as well as the principal Object Properties. For a better +visualization, the different parts of the diagram can be found disaggregated [here](diagrams/). + +![sem-disnet diagram](diagrams/SEM-DISNET_diagram.png) + +## Ontology (OWL) + +The encoded ontology can be found [here](ontology/SEM-DISNET_ontology.owl). + +## Documentation + +SEM-DISNET Documentation was generated using [WIDOCO](https://github.com/oeg-upm/Widoco) software. + +The whole documentation can be found [here](SEM-DISNET%20Documentation/). This folder includes: +- **OOPS! Evaluation**: folder with the HTML page generated by [OOPS!](https://github.com/oeg-upm/oops-plugin) for the evaluation of the ontology. +- **Provenance**: folder with the provenance section of the documentation. +- **Resources**: folder with the different resources. +- Documentation principal HTML page can be found [here](SEM-DISNET%20Documentation/index-en.html) +- Encoded ontology in different formats. + + + + diff --git a/diagrams/.gitkeep b/diagrams/.gitkeep new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/diagrams/diagrams_SEM-DISNET_ObjProp_hierarchy.png b/diagrams/diagrams_SEM-DISNET_ObjProp_hierarchy.png new file mode 100644 index 0000000000000000000000000000000000000000..a6922958ee230e1a070e705d3d25f9e2de4d6641 Binary files /dev/null and b/diagrams/diagrams_SEM-DISNET_ObjProp_hierarchy.png differ diff --git a/diagrams/sem-disnet_namespaces.png b/diagrams/sem-disnet_namespaces.png new file mode 100644 index 0000000000000000000000000000000000000000..6080d812b8468745869f97649c9757cea9732fcb Binary files /dev/null and b/diagrams/sem-disnet_namespaces.png differ diff --git a/requirements/.gitkeep b/requirements/.gitkeep new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391