[Platform]: cs async tooltip and study author (#694)

chinmehta · carcruz · web-flow · commit 4dbefabc7d03 · 2025-03-13T04:14:08.000-06:00
---------

Co-authored-by: Carlos Cruz &lt;me@carcruzcast.com&gt;
diff --git a/apps/platform/src/pages/CredibleSetPage/ProfileHeader.tsx b/apps/platform/src/pages/CredibleSetPage/ProfileHeader.tsx
@@ -12,6 +12,7 @@ import {
   DetailPopover,
   SummaryStatsTable,
   DisplaySampleSize,
+  StudyPublication,
 } from "ui";
 import { Box, Typography } from "@mui/material";
 import CREDIBLE_SET_PROFILE_HEADER_FRAGMENT from "./ProfileHeader.gql";
@@ -248,8 +249,11 @@ function ProfileHeader() {
         )}
         {study?.publicationFirstAuthor && (
           <Field loading={loading} title="Publication">
-            {study?.publicationFirstAuthor} <i>et al.</i> {study?.publicationJournal} (
-            {study?.publicationDate?.slice(0, 4)})
+            <StudyPublication
+              publicationFirstAuthor={study.publicationFirstAuthor}
+              publicationDate={study.publicationDate}
+              publicationJournal={study.publicationJournal}
+            />
           </Field>
         )}
         {study?.pubmedId && (
diff --git a/apps/platform/src/pages/SearchPage/SearchContainer.jsx b/apps/platform/src/pages/SearchPage/SearchContainer.jsx
@@ -229,7 +229,6 @@ function SearchContainer({ q, page, entities, data, onPageChange, onSetEntity })
           md={6}
           sx={{
             display: "flex",
-            alignItems: "center",
             justifyContent: "center",
           }}
         >
diff --git a/apps/platform/src/pages/SearchPage/StudyResult.jsx b/apps/platform/src/pages/SearchPage/StudyResult.jsx
@@ -1,7 +1,7 @@
-import { makeStyles, useTheme } from "@mui/styles";
+import { makeStyles } from "@mui/styles";
 import { FontAwesomeIcon } from "@fortawesome/react-fontawesome";
 import { faChartBar } from "@fortawesome/free-solid-svg-icons";
-import { Highlights, Link } from "ui";
+import { Highlights, Link, StudyPublication } from "ui";
 import { Box, Typography } from "@mui/material";
 import { getStudyItemMetaData } from "@ot/utils";
 
@@ -20,7 +20,6 @@ const useStyles = makeStyles(theme => ({
 
 function StudyResult({ data, highlights }) {
   const classes = useStyles();
-  const theme = useTheme();
 
   return (
     <div className={classes.container}>
@@ -42,12 +41,11 @@ function StudyResult({ data, highlights }) {
             <Box sx={{ display: "flex", flexDirection: "row", gap: 1 }}>
               <div>
                 {" "}
-                {data.publicationFirstAuthor && (
-                  <>
-                    {data.publicationFirstAuthor} <i>et al.</i> {data.publicationJournal} (
-                    {data.publicationDate?.slice(0, 4)})
-                  </>
-                )}
+                <StudyPublication
+                  publicationFirstAuthor={data.publicationFirstAuthor}
+                  publicationDate={data.publicationDate}
+                  publicationJournal={data.publicationJournal}
+                />
               </div>
             </Box>
             <div>
diff --git a/apps/platform/src/pages/StudyPage/StudyProfileHeader.tsx b/apps/platform/src/pages/StudyPage/StudyProfileHeader.tsx
@@ -9,6 +9,7 @@ import {
   LabelChip,
   DisplaySampleSize,
   PublicationsDrawer,
+  StudyPublication,
 } from "ui";
 import { Box } from "@mui/material";
 import { populationMap } from "@ot/constants";
@@ -106,8 +107,11 @@ function ProfileHeader() {
         )}
         {publicationFirstAuthor && (
           <Field loading={loading} title="Publication">
-            {publicationFirstAuthor} <i>et al.</i> {publicationJournal} (
-            {publicationDate?.slice(0, 4)})
+            <StudyPublication
+              publicationFirstAuthor={publicationFirstAuthor}
+              publicationDate={publicationDate}
+              publicationJournal={publicationJournal}
+            />
           </Field>
         )}
         {pubmedId && (
diff --git a/packages/ui/src/components/GlobalSearch/GlobalSearchListItem.jsx b/packages/ui/src/components/GlobalSearch/GlobalSearchListItem.jsx
@@ -7,6 +7,7 @@ import { faXmark, faClockRotateLeft, faArrowTrendUp } from "@fortawesome/free-so
 import { clearRecentItem } from "./utils/searchUtils";
 import DisplayVariantId from "../DisplayVariantId";
 import { getStudyItemMetaData } from "@ot/utils";
+import StudyPublication from "../StudyPublication";
 
 const ListItem = styled("li")(({ theme }) => ({
   cursor: "pointer",
@@ -215,12 +216,11 @@ function TopHitListItem({ item, onItemClick }) {
               <Typography variant="subtitle1">
                 {item.symbol && item.name}
 
-                {item.publicationFirstAuthor && (
-                  <>
-                    {item.publicationFirstAuthor} <i>et al.</i> {item.publicationJournal} (
-                    {item.publicationDate?.slice(0, 4)})
-                  </>
-                )}
+                <StudyPublication
+                  publicationFirstAuthor={item.publicationFirstAuthor}
+                  publicationDate={item.publicationDate}
+                  publicationJournal={item.publicationJournal}
+                />
               </Typography>
             </Box>
             <JustifyBetween>
diff --git a/packages/ui/src/components/Navigate.tsx b/packages/ui/src/components/Navigate.tsx
@@ -1,21 +1,15 @@
 import { Box } from "@mui/material";
 import Link from "./Link";
 import { FontAwesomeIcon } from "@fortawesome/react-fontawesome";
-import {
-  faArrowRight,
-  faArrowRightToBracket,
-  faCaretRight,
-  faChevronRight,
-  faArrowUpRightFromSquare,
-} from "@fortawesome/free-solid-svg-icons";
+import { faArrowRightToBracket } from "@fortawesome/free-solid-svg-icons";
 
 type NavigateProps = {
   to: string;
 };
 
 export default function Navigate({ to }: NavigateProps) {
   return (
-    <Link to={to}>
+    <Link asyncTooltip to={to}>
       <Box display="flex" justifyContent="center" alignItems="center" gap={1}>
         View
         <FontAwesomeIcon size="sm" icon={faArrowRightToBracket} />
diff --git a/packages/ui/src/components/OtAsyncTooltip/OtAsyncTooltip.tsx b/packages/ui/src/components/OtAsyncTooltip/OtAsyncTooltip.tsx
@@ -10,10 +10,15 @@ import {
   TooltipProps,
 } from "@mui/material";
 import { useLazyQuery } from "@apollo/client";
-import { getEntityIcon, getEntityQuery, getQueryVariables } from "./utils/asyncTooltipUtil";
+import {
+  getEntityDescription,
+  getEntityIcon,
+  getEntityQuery,
+  getQueryVariables,
+} from "./utils/asyncTooltipUtil";
 import { naLabel } from "@ot/constants";
 
-import { getStudyItemMetaData } from "@ot/utils";
+import StudyPublication from "../StudyPublication";
 
 const DELAY_REQUEST = 1000;
 
@@ -56,8 +61,10 @@ function OtAsyncTooltip({ children, entity, id }: OtAsyncTooltipProps): ReactEle
   });
 
   function getTooltipContent() {
+    let entityAccessor = entity;
     if (loading || !data) return <AsyncTooltipLoadingView />;
-    return <AsyncTooltipDataView entity={entity} data={data?.[entity]} />;
+    if (entity === "credible-set") entityAccessor = "credibleSet";
+    return <AsyncTooltipDataView entity={entity} data={data?.[entityAccessor]} />;
   }
 
   function abortApiCall() {
@@ -119,41 +126,33 @@ function AsyncTooltipDataView({
   entity: string;
   data: Record<string, unknown>;
 }): ReactElement {
-  function getLabel() {
-    return data?.name || data?.id || naLabel;
-  }
-
-  function getDescription() {
-    let descText = "";
-
-    if (Array.isArray(data.description) && data.description.length)
-      descText = data?.description[0].substring(0, 150);
-    else if (Array.isArray(data.description) && !data.description.length) descText = "";
-    else if (data.description) descText = data?.description.substring(0, 150);
-
-    // study subtext
-    descText += getStudyItemMetaData({
-      studyType: data?.studyType,
-      nSamples: data?.nSamples,
-      credibleSetsCount: data?.credibleSets?.credibleSetsCount,
-    });
-
-    if (!descText) return "No description available.";
-
-    return descText;
-  }
+  const showSubText = !!data?.mostSevereConsequence?.label || data?.publicationFirstAuthor;
 
   function getSubtext() {
-    let finalSubText = "";
+    let finalSubText;
 
+    // variant subtext
     const mostSevereConsequence = data?.mostSevereConsequence?.label;
+    if (mostSevereConsequence) finalSubText = `Most severe consequence: ${mostSevereConsequence}`;
 
-    if (mostSevereConsequence) finalSubText += `Most severe consequence: ${mostSevereConsequence}`;
+    // study subtext
+    const publicationData = data?.publicationFirstAuthor;
+    if (publicationData)
+      finalSubText = (
+        <StudyPublication
+          publicationDate={data?.publicationDate}
+          publicationFirstAuthor={data?.publicationFirstAuthor}
+          publicationJournal={data?.publicationJournal}
+        />
+      );
 
     return finalSubText;
   }
 
-  const showSubText = !!data?.mostSevereConsequence?.label;
+  function getLabel() {
+    if (entity === "credible-set") return "Credible set";
+    return data?.name || data?.id || naLabel;
+  }
 
   return (
     <Box sx={{ p: 1 }}>
@@ -184,7 +183,7 @@ function AsyncTooltipDataView({
             {getLabel()}
           </Box>{" "}
           <Box sx={{ typography: "body2", color: theme => theme.palette.grey[800] }}>
-            {getDescription()}
+            {getEntityDescription(entity, data)}
           </Box>
         </Box>
       </Box>
diff --git a/packages/ui/src/components/OtAsyncTooltip/queries/CredibleSetsTooltipQuery.gql b/packages/ui/src/components/OtAsyncTooltip/queries/CredibleSetsTooltipQuery.gql
@@ -0,0 +1,12 @@
+query CredibleSetsTooltipQuery($studyLocusId: String!) {
+  credibleSet(studyLocusId: $studyLocusId) {
+    id: studyLocusId
+    variant {
+      id
+    }
+    study {
+      id
+      studyType
+    }
+  }
+}
diff --git a/packages/ui/src/components/OtAsyncTooltip/queries/StudyTooltipQuery.gql b/packages/ui/src/components/OtAsyncTooltip/queries/StudyTooltipQuery.gql
@@ -7,5 +7,8 @@ query StudyTooltipQuery($studyId: String!) {
     credibleSets {
       credibleSetsCount: count
     }
+    publicationFirstAuthor
+    publicationDate
+    publicationJournal
   }
 }
diff --git a/packages/ui/src/components/OtAsyncTooltip/utils/asyncTooltipUtil.ts b/packages/ui/src/components/OtAsyncTooltip/utils/asyncTooltipUtil.ts
@@ -3,14 +3,17 @@ import DISEASE_TOOLTIP_QUERY from "../queries/DiseaseTooltipQuery.gql";
 import STUDY_TOOLTIP_QUERY from "../queries/StudyTooltipQuery.gql";
 import TARGET_TOOLTIP_QUERY from "../queries/TargetTooltipQuery.gql";
 import VARIANT_TOOLTIP_QUERY from "../queries/VariantTooltipQuery.gql";
+import CREDIBLE_SETS_TOOLTIP_QUERY from "../queries/CredibleSetsTooltipQuery.gql";
 import {
   faChartBar,
+  faDiagramProject,
   faDna,
   faMapPin,
   faPrescriptionBottleAlt,
   faStethoscope,
   faTag,
 } from "@fortawesome/free-solid-svg-icons";
+import { getStudyItemMetaData } from "@ot/utils";
 
 export function getQueryVariables(entity: string, id: string): Record<string, string> {
   switch (entity) {
@@ -24,6 +27,8 @@ export function getQueryVariables(entity: string, id: string): Record<string, st
       return { variantId: id };
     case "study":
       return { studyId: id };
+    case "credible-set":
+      return { studyLocusId: id };
     default:
       return { id };
   }
@@ -41,6 +46,8 @@ export const getEntityQuery = (entity: string) => {
       return TARGET_TOOLTIP_QUERY;
     case "variant":
       return VARIANT_TOOLTIP_QUERY;
+    case "credible-set":
+      return CREDIBLE_SETS_TOOLTIP_QUERY;
     default:
       return;
   }
@@ -58,7 +65,48 @@ export const getEntityIcon = (entity: string) => {
       return faDna;
     case "variant":
       return faMapPin;
+    case "credible-set":
+      return faDiagramProject;
     default:
       return faTag;
   }
 };
+
+export const getEntityDescription = (entity, data) => {
+  switch (entity) {
+    case "drug":
+      return getTrimmedDescription(data?.description);
+    case "disease":
+      return getTrimmedDescription(data?.description);
+    case "study":
+      return getStudyItemMetaData({
+        studyType: data?.studyType,
+        nSamples: data?.nSamples,
+        credibleSetsCount: data?.credibleSets?.credibleSetsCount,
+      });
+    case "target":
+      return getTrimmedDescription(data?.description[0] || "");
+    case "variant":
+      return getTrimmedDescription(data?.description);
+    case "credible-set":
+      return getCredibleSetsDescription({
+        variantId: data?.variant.id,
+        studyId: data?.study.id,
+      });
+    default:
+      return "No description available.";
+  }
+};
+
+const getTrimmedDescription = (description: string | null) => {
+  if (!description || description.length < 1) return "No description available.";
+  return description.substring(0, 150);
+};
+
+export const getCredibleSetsDescription = ({ variantId, studyId }): string => {
+  let metaData = "";
+  if (variantId) metaData += `Lead Variant: ${variantId}`;
+  if (studyId) metaData += ` • Study ID: ${studyId}`;
+
+  return metaData;
+};
diff --git a/packages/ui/src/components/StudyPublication.tsx b/packages/ui/src/components/StudyPublication.tsx
@@ -0,0 +1,26 @@
+import { ReactNode } from "react";
+
+type StudyPublicationProps = {
+  publicationFirstAuthor: string;
+  publicationJournal: string;
+  publicationDate: string;
+};
+
+function StudyPublication({
+  publicationFirstAuthor,
+  publicationJournal,
+  publicationDate,
+}: StudyPublicationProps): ReactNode {
+  if (!publicationFirstAuthor) return "";
+  return (
+    <>
+      {publicationFirstAuthor && (
+        <>
+          {publicationFirstAuthor} <i>et al.</i> {publicationJournal} (
+          {publicationDate?.slice(0, 4)})
+        </>
+      )}
+    </>
+  );
+}
+export default StudyPublication;
diff --git a/packages/ui/src/index.tsx b/packages/ui/src/index.tsx
@@ -48,6 +48,7 @@ export { default as OtScoreLinearBar } from "./components/OtScoreLinearBar";
 export { default as OtTableSSP } from "./components/OtTable/OtTableSSP";
 export { default as EntityPanel } from "./components/EntityPanel/EntityPanel";
 export { default as Page } from "./pages/Page";
+export { default as StudyPublication } from "./components/StudyPublication";
 
 export * as summaryUtils from "./components/Summary/utils";
 export * from "./components/Footer";

Original file line number	Diff line number	Diff line change
`@@ -229,7 +229,6 @@ function SearchContainer({ q, page, entities, data, onPageChange, onSetEntity })`
`229`	`229`	`md={6}`
`230`	`230`	`sx={{`
`231`	`231`	`display: "flex",`
`232`		`- alignItems: "center",`
`233`	`232`	`justifyContent: "center",`
`234`	`233`	`}}`
`235`	`234`	`>`
Original file line number	Diff line number	Diff line change
`@@ -7,5 +7,8 @@ query StudyTooltipQuery($studyId: String!) {`
`7`	`7`	`credibleSets {`
`8`	`8`	`credibleSetsCount: count`
`9`	`9`	`}`
	`10`	`+ publicationFirstAuthor`
	`11`	`+ publicationDate`
	`12`	`+ publicationJournal`
`10`	`13`	`}`
`11`	`14`	`}`