updated assay_ontology_term_id (#1085)

chanzuckerberg · Nov 5, 2024 · 934c2e7 · 934c2e7
1 parent 9e53036
commit 934c2e7
Showing 1 changed file with 11 additions and 3 deletions.
diff --git a/schema/drafts/5.3.0.md b/schema/drafts/5.3.0.md
@@ -410,7 +410,7 @@ Curators MUST annotate the following columns in the `obs` dataframe:
           <li>
             the most accurate descendant of <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0010183"><code>"EFO:0010183"</code></a>  for <i>single cell library construction</i>
           </li></ul>
-        If <code>assay_ontology_term_id</code> is either <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0010961"><code>"EFO:0010961"</code></a> for <i>Visium Spatial Gene Expression</i> or <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0030062"><code>"EFO:0030062"</code></a> for <i>Slide-seqV2</i> then all observations MUST contain the same value.<br><br>
+        If <code>assay_ontology_term_id</code> is either a descendant of <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0010961"><code>"EFO:0010961"</code></a> for <i>Visium Spatial Gene Expression</i> or <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0030062"><code>"EFO:0030062"</code></a> for <i>Slide-seqV2</i> then all observations MUST contain the same value.<br><br>
         An assay based on 10X Genomics products SHOULD either be <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0008995"><code>"EFO:0008995"</code></a> for <i>10x technology</i> or <b>preferably</b> its most accurate descendant. An assay based on <i>SMART (Switching Mechanism at the 5' end of the RNA Template) or SMARTer technology</i> SHOULD either be <a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0010184"><code>"EFO:0010184"</code></a> for <i>Smart-like</i> or preferably its most accurate descendant.<br><br>
        <br>Recommended values for specific assays:
           <br><br>
@@ -443,8 +443,16 @@ Curators MUST annotate the following columns in the `obs` dataframe:
               <td><a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0008931"><code>"EFO:0008931"</code></a></td>
             </tr>
             <tr>
-              <td><i>Visium Spatial Gene Expression</i></td>
-              <td><a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0010961"><code>"EFO:0010961"</code></a></td>
+              <td><i>Visium Spatial Gene Expression V1</i></td>
+              <td><a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0022857"><code>"EFO:0022857"</code></a></td>
+            </tr>
+            <tr>
+              <td><i>Visium CytAssist Spatial Gene Expression, 6.5mm</i></td>
+              <td><a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0022859"><code>"EFO:0022859"</code></a></td>
+            </tr>
+            <tr>
+              <td><i>Visium CytAssist Spatial Gene Expression, 11mm</i></td>
+              <td><a href="https://www.ebi.ac.uk/ols4/ontologies/efo/classes?obo_id=EFO%3A0022860"><code>"EFO:0022860"</code></a></td>
             </tr>
           </tbody></table>
         </td>