The OREGANO knowledge graph for computational drug repurposing

<p>The files here are data files from the OREGANO project, which consists of building a holistic knowledge graph on drugs, including natural compounds. Here is the list of files:</p><p>&nbsp;</p><p>- OREGANO_V2.tsv : The triplet file used for link prediction. 3 columns : Subjet ; Predicate ; Object</p><p>- oreganov2.1_metadata_complet.ttl : The OREGANO knowledge graph in turtle format with the names and cross-references of the various integrated entities.</p><p>&nbsp;</p><p>The following files contain the cross-references of OREGANO entities according to their type. They are all organised as follows: the external sources are the titles of the columns and each line begins with the identifier of the entity in OREGANO :</p><p>- TARGET.tsv: Cross-reference table of the 22,096 targets.<br>- PHENOTYPES.tsv:&nbsp;Cross-reference table of the 11,605 phenotypes.<br>- DISEASES.tsv:&nbsp;&nbsp;Cross-reference table of the 18,333 diseases.<br>- PATHWAYS.tsv: Cross-reference table of the 2,129 pathways.<br>- GENES.tsv: Cross-reference table of the 35,794 genes.<br>- COMPOUND.tsv:&nbsp; Cross-reference table of the 90,868 compounds.<br>- INDICATIONS.tsv: Cross-reference table of the 2,714 indications.<br>- SIDE_EFFECT.tsv:&nbsp;Cross-reference table of the 6,060 side-effects.<br>- ACTIVITY.tsv: Names of the 78 activities.<br>- EFFECT.tsv: Names of the 171 effects.</p><p>The OREGANO knowledge graph is composed of 11 types of nodes and 19 types of links. The current version of the graph contains 88,937 nodes and 824,231 links.</p><p>A SPARQL endpoint has been provided to enable users to retrieve and explore the knowledge graph at <a href="http://91.121.148.199:8889/bigdata/#query">OREGANO SPARQL endpoint</a> .</p><p>&nbsp;</p><p>The integration files and the knowledge graph are available on the GitHub of the OREGANO project in the Integration folder: <a href="https://gitub.u-bordeaux.fr/erias/oregano">Gitub repository</a> .</p><p>&nbsp;</p>