Merge pull request #204 from opentargets/cc-rename-pQTL-label

[Variant page]: parse pQTL studies
opentargets-archive · Feb 23, 2022 · 7308263 · 7308263
2 parents ee6436c + fb66c8c
commit 7308263
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Showing 2 changed files with 34 additions and 1 deletion.
diff --git a/src/pages/VariantPage/VariantPage.js b/src/pages/VariantPage/VariantPage.js
@@ -25,6 +25,7 @@ import {
   variantHasAssociatedGenes,
   variantTransformAssociatedIndexVariants,
   variantTransformAssociatedTagVariants,
+  variantParseGenesForVariantSchema,
 } from '../../utils';
 
 const VARIANT_PAGE_QUERY = loader('../../queries/VariantPageQuery.gql');
@@ -118,6 +119,10 @@ function VariantPage(props) {
             ? variantTransformAssociatedTagVariants(data)
             : [];
 
+          const genesForVariantSchema = isGeneVariant
+            ? variantParseGenesForVariantSchema(data)
+            : [];
+
           return (
             <Fragment>
               <SectionHeading
@@ -137,7 +142,7 @@ function VariantPage(props) {
               {isGeneVariant ? (
                 <AssociatedGenes
                   variantId={variantId}
-                  genesForVariantSchema={data.genesForVariantSchema}
+                  genesForVariantSchema={genesForVariantSchema}
                   genesForVariant={data.genesForVariant}
                 />
               ) : (

diff --git a/src/utils/variant.js b/src/utils/variant.js
@@ -80,3 +80,31 @@ export const variantPopulations = [
   { code: 'NFESEU', description: 'Non-Finnish European Southern European' },
   { code: 'OTH', description: 'Other (population not assigned)' },
 ];
+
+export function variantParseGenesForVariantSchema(data) {
+  const genesForVariantSchema = data.genesForVariantSchema;
+  const currentQtls = genesForVariantSchema.qtls;
+  if (currentQtls.length === 0) return genesForVariantSchema;
+  if (currentQtls[0].id === 'pqtl') {
+    const pqtl = currentQtls[0];
+    const restQtls = currentQtls.slice(1, pqtl.length);
+    const sourceDescriptionBreakdown = parseSourceDescriptionBreakdown(
+      pqtl.sourceDescriptionBreakdown
+    );
+    const sourceLabel = parseSourceLabel(pqtl.sourceLabel);
+    const newPqtl = { ...pqtl, sourceDescriptionBreakdown, sourceLabel };
+    const newQtls = [newPqtl, ...restQtls];
+    return { ...genesForVariantSchema, qtls: newQtls };
+  }
+  return genesForVariantSchema;
+}
+
+function parseSourceDescriptionBreakdown(description = '') {
+  if (!description) return;
+  return description.replace(' Sun *et al.* (2018)', '');
+}
+
+function parseSourceLabel(label = '') {
+  if (!label) return;
+  return label.replace(' (Sun, 2018)', '');
+}