Tables for "Specimen, biological structure, and spatial ontologies in support of a Human Reference Atlas"

<strong>Table 1. CCF Specimen, Biological Structure, and Spatial Ontology. </strong>For each ontology, we provide all class names, property names, entity Internationalized Resource Identifier (IRI), definition when available, and entity type. <strong>Table 2. 3D Reference Objects. </strong>The 3rd HRA release features 53 <em>Spatial Entities</em> of type <em>Spatial Object Reference</em> that are linked to anatomical structures in the ASCT+B tables plus 43 <em>Spatial Entities</em> of type <em>Extraction Site</em>. For each entity, we provide the spatial entity<em> </em>name, 3D object file name, ID and version number, organ label, sex, and type. Note that a landmark is a <em>Spatial Entity</em> that has been tagged as an <em>Extraction Set</em> for a specific <em>Extraction Site</em>, see <strong>Table 3</strong>. <strong>Table 3. Registered Tissue Data. </strong>This table shows 364 <em>Extraction Site </em>entities that either represent the registration location for <em>Tissue Blocks</em> or <em>Registration Sites</em>. For each, we provide consortium name and entity ID, HuBMAP ID if available, and experimental data donor sex as well as HRA data such as organ name, sex, Uberon ID, and GLB file. The data comes from four consortia. HuBMAP data includes 306 tissue blocks, and many of these have derived tissue sections with one or more associated datasets. The 29 well-defined GTEx extraction set sites link to 5,397 datasets. The 26 SPARC blocks link to one paper while the three KPMP tissue blocks link to two data publications.