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Update news 4.22
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@jfkonecn
jfkonecn committed Oct 22, 2024
1 parent b54197a commit b188c16
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Showing 9 changed files with 8,888 additions and 8,231 deletions.
47 changes: 41 additions & 6 deletions src/main/webapp/app/components/SimpleTable.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,10 @@ import * as React from 'react';
import { Table } from 'react-bootstrap';

export type ElementType = JSX.Element | string;
export type SimpleTableCell = { key: string; content: ElementType };
export type SimpleTableCell = {
key: string;
content: ElementType | ElementType[];
};
export type SimpleTableRow = { key: string; content: SimpleTableCell[] };
export type SimpleTableRows = SimpleTableRow[];
export type SimpleTableColumn = {
Expand All @@ -21,8 +24,8 @@ export type SimpleTableProps = {
export const SimpleTable = (props: SimpleTableProps) => {
const getRow = (row: SimpleTableRow) => {
return row.content
? row.content.map(cell => {
return <td key={cell.key}>{cell.content}</td>;
? row.content.map(({ key, content }) => {
return <td key={key}>{content}</td>;
})
: null;
};
Expand All @@ -44,9 +47,41 @@ export const SimpleTable = (props: SimpleTableProps) => {
</thead>
)}
<tbody className={props.tbodyClassName}>
{props.rows.map(row => (
<tr key={row.key}>{getRow(row)}</tr>
))}
{props.rows.flatMap(({ key, content }) => {
let maxContentSize = 1;
for (const cur of content) {
maxContentSize = Array.isArray(cur.content)
? Math.max(cur.content.length, maxContentSize)
: maxContentSize;
}
const elements: JSX.Element[] = [];
for (let i = 0; i < maxContentSize; i++) {
const element = (
<tr key={`${key}_${i}`}>
{content.map(({ content: innerContent, key: innerKey }) => {
if (Array.isArray(innerContent)) {
return <td key={innerKey}>{innerContent[i]}</td>;
} else if (i === 0) {
return (
<td
key={innerKey}
rowSpan={
maxContentSize > 1 ? maxContentSize : undefined
}
>
{innerContent}
</td>
);
} else {
return <></>;
}
})}
</tr>
);
elements.push(element);
}
return elements;
})}
</tbody>
</Table>
</div>
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1 change: 1 addition & 0 deletions src/main/webapp/app/config/constants.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -821,6 +821,7 @@ export type DataRelease = {
};

export const DATA_RELEASES: DataRelease[] = [
{ date: '10232024', version: 'v4.22' },
{ date: '09252024', version: 'v4.21' },
{ date: '08152024', version: 'v4.20' },
{ date: '07042024', version: 'v4.19' },
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2 changes: 1 addition & 1 deletion src/main/webapp/app/pages/newsPage/ChangedAnnotationListItem.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -117,7 +117,7 @@ export const ChangedAnnotationListItem = (props: {
case AnnotationColumnHeaderType.UPDATED_SAME_LEVEL_DRUG:
annotationColumnHeader = CHANGED_ANNOTATION_UPDATED_DRUG_SAME_HIGHEST_LEVEL_COLUMNS;
defaultTitle =
"Addition of drug(s) associated with a tumor type-specific leveled alteration(s) currently in OncoKB™ (without changing the alteration's highest level of evidence)";
"Updated therapeutic implications - Addition of drug(s) associated with a tumor type-specific leveled alteration(s) currently in OncoKB™ (without changing the alteration's highest level of evidence)";
useOneLineRowClass = true;
break;
case AnnotationColumnHeaderType.LEVEL:
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1 change: 1 addition & 0 deletions src/main/webapp/app/pages/newsPage/NewsPage.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -87,6 +87,7 @@ export default class NewsPage extends React.Component<{
<CitationText />
</div>
<div className="mt-2">
<NewsList date={'10232024'} />
<NewsList date={'09252024'} />
<NewsList date={'08152024'} />
<NewsList date={'07042024'} />
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266 changes: 265 additions & 1 deletion src/main/webapp/app/pages/newsPage/NewsPageContent.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -46,7 +46,7 @@ import { AnnotationColumnHeaderType } from './ChangedAnnotationListItem';
import { linkableMutationName, convertGeneInputToLinks } from './Util';

export type ChangedAnnotation = {
content: ElementType[][];
content: (ElementType | ElementType[])[][];
title?: string;
columnHeaderType?: AnnotationColumnHeaderType;
headers?: { name: string }[];
Expand Down Expand Up @@ -300,6 +300,270 @@ const EVIDENCE_COLUMN_SEPARATOR = '; ';
// https://stackoverflow.com/questions/41947168/is-it-possible-to-use-keyof-operator-on-literals-instead-of-interfaces

export const NEWS_BY_DATE: { [date: string]: NewsData } = {
'10232024': {
priorityNews: [
<span>
Update to our{' '}
<Link to={PAGE_ROUTE.CDX}>
FDA Cleared or Approved Companion Diagnostic Devices
</Link>{' '}
(CDx) page
</span>,
<span>
Update to our{' '}
<Link to={PAGE_ROUTE.ONCOLOGY_TX}>FDA-Approved Oncology Therapies</Link>{' '}
page
</span>,
],
changedAnnotations: [
{
columnHeaderType: AnnotationColumnHeaderType.NEW_ALTERATION_WITH_LEVEL,
content: [
[
['3A', 'R2'],
'ROS1',
<WithSeparator separator={', '}>
{getAlternativeAllelesPageLinks('ROS1', 'G2032R')}
</WithSeparator>,
'Non-Small Cell Lung Cancer',

['Taletrectinib', 'Crizotinib, Lorlatinib'],
[
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="38822758, 31399568" />
</WithSeparator>,
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink
wrapText
pmids="33685866, 29333528, 23724914, 36135089, 36135089, 32918045"
/>
</WithSeparator>,
],
],
[
['3A', 'R2'],
'ROS1',
<WithSeparator separator={', '}>
{getAlternativeAllelesPageLinks('ROS1', 'L2086F')}
</WithSeparator>,
'Non-Small Cell Lung Cancer',
['Cabozantinib', 'Lorlatinib, Repotrectinib'],
[
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="33685866, 37291202, 39117775, 39091594" />
</WithSeparator>,
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="37291202, 33685866, 39091594" />
</WithSeparator>,
],
],
[
'3A',
'SMARCA4',
'Oncogenic Mutations',
'Non-Small Cell Lung Cancer, Esophageal Adenocarcinoma',
'PRT3789',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<AbstractLink
abstract="Guo, R. et al., Abstract# 603O, ESMO 2024"
link="https://www.annalsofoncology.org/article/S0923-7534(24)02189-6/fulltext"
/>
<AbstractLink
abstract="Hulse, M. et al., Abstract# 3263, AACR 2022"
link="https://aacrjournals.org/cancerres/article/82/12_Supplement/3263/703325/Abstract-3263-Preclinical-characterization-of"
/>
</WithSeparator>,
],
],
},
{
useOneLineRowClass: false,
title:
'Updated therapeutic implications - Promotion of tumor type-specific level of evidence for an alteration(s)',
headers: CHANGED_ANNOTATION_LEVEL_WITH_EVIDENCE_COLUMNS,
content: [
[
'PIK3CA',
<>
<AlterationPageLink
hugoSymbol="PIK3CA"
alteration="Oncogenic Mutations"
/>{' '}
<span>
(excluding R88Q, N345K, C420R, E542K, E545A/D/G/K/Q,
Q546E/K/R/P, M1043V/I, H1047Y/R/L, G1049R which are already
Level 1)
</span>
</>,
'Breast Cancer',
<div>
<div style={{ fontStyle: 'italic' }}>
{DRUGS_CURRENTLY_IN_ONCOKB}:
</div>
<div>
Alpelisib + Fulvestrant, Capivasertib + Fulvestrant (Level 2)
</div>
<br></br>
<div>Inavolisib + Palbociclib + Fulvestrant (Level 3A)</div>
<br></br>
<div style={{ fontStyle: 'italic' }}>
{DRUGS_PROMOTED_IN_ONCOKB}:
</div>
<div>Inavolisib + Palbociclib + Fulvestrant (Level 1)</div>
</div>,
'2',
'1',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<FdaApprovalLink
approval="Inavolisib + Palbociclib + Fulvestrant"
link="https://www.fda.gov/drugs/resources-information-approved-drugs/fda-approves-inavolisib-palbociclib-and-fulvestrant-endocrine-resistant-pik3ca-mutated-hr-positive"
/>
<AbstractLink
abstract="Jhaveri, K. et al., Abstract# GS03-13, SABCS 2023"
link="https://medically.gene.com/global/en/unrestricted/oncology/SABCS-2023/sabcs-2023-presentation-jhaveri-inavolisib-or-placebo-i.html"
/>
</WithSeparator>,
],
],
},
{
columnHeaderType: AnnotationColumnHeaderType.UPDATED_SAME_LEVEL_DRUG,
content: [
[
'1',
'EGFR',
<>
<AlterationPageLink
hugoSymbol="EGFR"
alteration={'Exon 19 in-frame deletions'}
/>
, <AlterationPageLink hugoSymbol="EGFR" alteration={'L858R'} />
</>,
'Non-Small Cell Lung Cancer',
<>
<div>
Afatinib, Dacomitinib, Erlotinib, Erlotinib + Ramucirumab,
Gefitinib, Osimertinib, Osimertinib + Chemotherapy, Amivantamab
+ Lazertinib (Level 1)
</div>
<br></br>
<div>Amivantamab + Chemotherapy (Level 2)</div>
<br></br>
<div>Patritumab Deruxtecan (Level 3A)</div>
</>,

'Amivantamab + Chemotherapy (Level 1)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<FdaApprovalLink
approval="Amivantamab with Chemotherapy"
link="https://www.fda.gov/drugs/resources-information-approved-drugs/fda-approves-amivantamab-vmjw-carboplatin-and-pemetrexed-non-small-cell-lung-cancer-egfr-exon-19"
/>
<PMIDLink pmids="37879444" />
</WithSeparator>,
],
[
'1',
'PIK3CA',
<WithSeparator separator={', '}>
{getAlternativeAllelesPageLinks('PIK3CA', 'R88Q')}
{getAlternativeAllelesPageLinks('PIK3CA', 'N345K')}
{getAlternativeAllelesPageLinks('PIK3CA', 'C420R')}
{getAlternativeAllelesPageLinks('PIK3CA', 'E542K')}
{getAlternativeAllelesPageLinks('PIK3CA', 'E545A/D/G/K/Q')}
{getAlternativeAllelesPageLinks('PIK3CA', 'Q546E/K/R/P')}
{getAlternativeAllelesPageLinks('PIK3CA', 'M1043V/I')}
{getAlternativeAllelesPageLinks('PIK3CA', 'H1047Y/R/L')}
{getAlternativeAllelesPageLinks('PIK3CA', 'G1049R')}
</WithSeparator>,
'Breast Cancer',
<>
<div>Capivasertib + Fulvestrant (Level 1)</div>
<br></br>
<div>
Alpelisib + Fulvestrant (Level 1 for PIK3CA C420R, E542K,
E545A/D/G/K, H1047Y/R/L, Q546E/R only)'
</div>
</>,
'Inavolisib + Palbociclib + Fulvestrant (Level 1; Promoted from Level 3A)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<FdaApprovalLink
approval="Inavolisib with Palbociclib + Fulvestrant"
link="https://www.fda.gov/drugs/resources-information-approved-drugs/fda-approves-inavolisib-palbociclib-and-fulvestrant-endocrine-resistant-pik3ca-mutated-hr-positive"
/>
<AbstractLink
abstract="Jhaveri, K. et al., Abstract# GS03-13, SABCS 2023"
link="https://medically.gene.com/global/en/unrestricted/oncology/SABCS-2023/sabcs-2023-presentation-jhaveri-inavolisib-or-placebo-i.html"
/>
</WithSeparator>,
],
[
'1',
'ALK',
'Fusions',
'Non-Small Cell Lung Cancer',
'Alectinib, Brigatinib, Certinib, Crizotinib, Lorlatinib (Level 1) ',
'NVL-655 (Level 3A)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="39269178" />
<AbstractLink
abstract="Drilon, A. et al., Abstract# 1253O, ESMO 2024 "
link="https://www.annalsofoncology.org/article/S0923-7534(24)02829-1/fulltext"
/>
</WithSeparator>,
],
[
'1',
'ROS1',
'Fusions',
'Non-Small Cell Lung Cancer',
<>
<div>Crizotinib, Entrectinib, Repotrectinib (Level 1)</div>
<br></br>
<div>Ceritinib, Lorlatinib (Level 2)</div>
</>,
'Taletrectinib (Level 3A)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="38822758, 36877099, 31399568" />
</WithSeparator>,
],
[
'2',
'ALK',
'G1202R',
'Non-Small Cell Lung Cancer',
'Lorlatinib (Level 2)',
'NVL-655 (Level 3A)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<PMIDLink pmids="39269178" />
<AbstractLink
abstract="Drilon, A. et al., Abstract# 1253O, ESMO 2024"
link="https://www.annalsofoncology.org/article/S0923-7534(24)02829-1/fulltext"
/>
</WithSeparator>,
],
[
'3A',
'KRAS',
'G12D',
'Non-Small Cell Lung Cancer, Pancreatic Adenocarcinoma',
'RMC-6236 (Level 3A)',
'ASP3082 (Level 3A; Promoted from Level 4)',
<WithSeparator separator={EVIDENCE_COLUMN_SEPARATOR}>
<AbstractLink
abstract="Park, W. et al., Abstract# 608O, ESMO 2024"
link="https://www.annalsofoncology.org/article/S0923-7534(24)02194-X/fulltext"
/>
<AbstractLink
abstract="Nagashima, T. et al., Abstract# 5735, AACR 2023"
link="https://aacrjournals.org/cancerres/article/83/7_Supplement/5735/722276"
/>
</WithSeparator>,
],
],
},
],
newlyAddedGenes: ['ADARB2', 'BUB1B', 'CCN6', 'CDKN1C', 'EGR2'],
},
'09252024': {
changedAnnotations: [
{
Expand Down
2 changes: 1 addition & 1 deletion src/main/webapp/app/pages/oncologyTherapiesPage/oncologyTherapiesPage.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -486,7 +486,7 @@ const OncologyTherapiesPage: React.FunctionComponent<{}> = props => {
'https://www.fda.gov/drugs/resources-information-approved-drugs/oncology-cancer-hematologic-malignancies-approval-notifications'
}
>
Content current as of 8/5/2024
Content current as of 10/21/2024
</Linkout>
</div>
<div>
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