[Platform]: Update molQTL coloc columns on credible set page (#604)

opentargets · Dec 9, 2024 · c758c62 · c758c62
1 parent b19b288
commit c758c62
Show file tree

Hide file tree

Showing 2 changed files with 21 additions and 25 deletions.
diff --git a/packages/sections/src/credibleSet/MolQTLColoc/Body.tsx b/packages/sections/src/credibleSet/MolQTLColoc/Body.tsx
@@ -13,7 +13,6 @@ import { definition } from ".";
 import Description from "./Description";
 import MOLQTL_COLOC_QUERY from "./MolQTLColocQuery.gql";
 import { mantissaExponentComparator, variantComparator } from "../../utils/comparators";
-import { getStudyCategory } from "../../utils/getStudyCategory";
 import { useEffect, useState } from "react";
 
 const columns = [
@@ -35,45 +34,41 @@ const columns = [
     },
   },
   {
-    id: "otherStudyLocus.study.traitFromSource",
-    label: "Reported trait",
+    id: "otherStudyLocus.study.studyType",
+    label: "Type",
     renderCell: ({ otherStudyLocus }) => {
-      const trait = otherStudyLocus?.study?.traitFromSource;
-      if (!trait) return naLabel;
-      return trait;
+      const studyType = otherStudyLocus?.study?.studyType;
+      if (!studyType) return naLabel;
+      return studyType;
     },
   },
   {
-    id: "otherStudyLocus.study.publicationFirstAuthor",
-    label: "First author",
+    id: "otherStudyLocus.study.target.approvedSymbol",
+    label: "Affected gene",
     renderCell: ({ otherStudyLocus }) => {
-      const { projectId, publicationFirstAuthor } = otherStudyLocus?.study || {};
-      return getStudyCategory(projectId) === "FINNGEN"
-        ? "FinnGen"
-        : publicationFirstAuthor || naLabel;
-    },
-    exportValue: ({ otherStudyLocus }) => {
-      const { projectId, publicationFirstAuthor } = otherStudyLocus.study || {};
-      getStudyCategory(projectId) === "FINNGEN" ? "FinnGen" : publicationFirstAuthor;
+      const target = otherStudyLocus?.study?.target;
+      if (!target) return naLabel;
+      return <Link to={`/target/${target.id}`}>{target.approvedSymbol}</Link>;
     },
   },
+
   {
-    id: "otherStudyLocus.study.studyType",
+    id: "otherStudyLocus.study.biosample.biosampleName",
     label: "Affected tissue/cell",
     renderCell: ({ otherStudyLocus }) => {
       const biosample = otherStudyLocus?.study?.biosample;
       if (!biosample) return naLabel;
-      return <Link to={`../study/${biosample.biosampleId}`}>{biosample.name}</Link>;
+      return (
+        <Link external to={`https://www.ebi.ac.uk/ols4/search?q=${biosample.biosampleId}&ontology=uberon`}>
+          {biosample.biosampleName}
+        </Link>
+      );
     },
   },
   {
-    id: "otherStudyLocus.study.studyType",
-    label: "QTL type",
-    renderCell: ({ otherStudyLocus }) => {
-      const studyType = otherStudyLocus?.study?.studyType;
-      if (!studyType) return naLabel;
-      return studyType;
-    },
+    id: "otherStudyLocus.study.condition",
+    label: "Condition",
+    renderCell: ({ otherStudyLocus }) => otherStudyLocus?.study?.condition || naLabel,
   },
   {
     id: "otherStudyLocus.variant.id",

diff --git a/packages/sections/src/credibleSet/MolQTLColoc/MolQTLColocQuery.gql b/packages/sections/src/credibleSet/MolQTLColoc/MolQTLColocQuery.gql
@@ -14,6 +14,7 @@ query MolQTLColocQuery($studyLocusId: String!, $size: Int!, $index: Int!) {
             projectId
             traitFromSource
             publicationFirstAuthor
+            condition
             target {
               approvedSymbol
               id