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Merge pull request #234 from zhx828/hotfix
Release 1.18
2 parents c15af47 + dfd0377 commit 9f4c77d

16 files changed

+6256
-17
lines changed

‎app/scripts/app.js

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@@ -145,8 +145,8 @@ angular.module('oncokbStaticApp').run(
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}, {content: '3855 Variants'}, {content: '60 Tumor Types'}]
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};
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$rootScope.data = {
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lastUpdate: 'November 2, 2018',
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version: '1.17_patch_1',
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lastUpdate: 'December 14, 2018',
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version: '1.18',
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levelColors: {
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'1': '#33A02C',
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'2A': '#1F78B4',

‎app/scripts/controllers/news.js

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@@ -121,6 +121,25 @@ angular.module('oncokbStaticApp')
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'RET - Fusions - Non-Small Cell Lung Cancer - LOXO-292 (<b>added as new association</b>)',
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]
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},
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'12142018': {
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'Level 1': [
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'November 26, 2018: <a target="_blank" ' +
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'href="https://www.fda.gov/Drugs/InformationOnDrugs/ApprovedDrugs/ucm626720.htm">' +
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'the FDA approved larotrectinib</a> for adult and pediatric patients with solid tumors that have an NTRK1, -2, or -3 gene fusion without a known acquired resistance mutation.'
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],
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'Level 2': [
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'BRCA1/2 - Oncogenic Mutations - Breast Cancer - Talazoparib (<b>new association</b>)',
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'RET - Fusions - Non-Small Cell Lung Cancer - BLU-667 (<b>new association</b>)'
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],
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'Level 3': [
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'BRAF - V600E - Colorectal Cancer - Encorafenib + Binimetinib + Cetuximab (<b>new association</b>)',
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'ERBB2 - Oncogenic Mutations - Non-Small Cell Lung Cancer - Ado-trastuzumab Emtansine (<b>new association</b>)',
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'RET - Oncogenic Mutations - Medullary Thyroid Cancer - BLU-667 (<b>new association</b>)',
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],
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'Level 4': [
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'KDM6A - Oncogenic Mutations - Bladder Cancer - EZH2 inhibitors (<b>new association</b>)',
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]
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},
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};
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$scope.data.newlyAddedLevelFour = [
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{
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'08172018': ['ACTG1', 'ARHGEF28', 'ARID3A', 'ARID3B', 'ARID3C', 'ARID4A', 'ARID4B', 'ARID5A', 'ATP6AP1', 'ATP6V1B2', 'ATXN2', 'BACH2', 'BCL11B', 'BCORL1', 'BCR', 'BTG1', 'CD28', 'CD58', 'CIITA', 'CRBN', 'CUX1', 'DDX3X', 'DTX1', 'DUSP22', 'EGR1', 'EP400', 'ESCO2', 'ETNK1', 'FANCD2', 'FAS', 'FBXO11', 'FURIN', 'GNA12', 'GNA13', 'GNB1', 'GTF2I', 'HDAC1', 'HDAC4', 'HDAC7', 'HIF1A', 'HIST1H1B', 'HIST1H1D'],
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'10012018': ['HIST1H1E','SETD6','SETD5','SETD7','SETDB2','SETDB1','SETD4','SETD3','SETD1B','U2AF2','TET3','NFE2','IRF8','IRF1','IKZF3','JARID2','NCSTN','HIST1H2BO','HIST1H2AC','HIST1H2BG','HIST1H2BJ','HIST1H2BK','HIST1H2BC','HIST1H2AG','HIST1H2AL','HIST1H2AM','TYK2'],
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'10262018': ['NT5C2','P2RY8','PCBP1','PDS5B','PTPN1','PTPN2 ','STAG1','TRAF3','TRAF5'],
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'12142018': ['KSR2','LCK','LTB','MGAM','MOB3B','MPEG1','NCOR2','PIGA','PLCG1','POT1','ROBO1','RUNX1T1','SAMHD1','SETD1A','SGK1','SMC1A','SMC3','SMG1','SP140','STAT6','TBL1XR1','UBR5','VAV1','VAV2','XBP1'],
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};
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});

‎app/scripts/directives/main-level.js

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@@ -14,7 +14,6 @@ angular.module('oncokbStaticApp')
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scope: {
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level: '=',
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geneCount: '=',
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color: '=',
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desc: '=',
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class: '='
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},

‎app/styles/_home.scss

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}
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.main-level {
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margin-bottom: 15px;
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.button {
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margin: auto;
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width: 160px;
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font-weight: bold;
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text-align: center;
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}
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.level-4 {
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color: $level-4;
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}
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.level-R1 {
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color: $level-R1;
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}
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.level-R2 {
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color: $level-R2;
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}
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.hoverStyle a:hover {
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color: #1c75cd;
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}
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}
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.citation {
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text-align: center;
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margin-bottom: 0;
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a {
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font-weight: bold;
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}

‎app/views/dataaccess.html

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@@ -16,6 +16,10 @@ <h3 class="title">Data Download</h3>
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ng-href="{{apiLink}}utils/allActionableVariants.txt"
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download><i
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class="fa fa-cloud-download"></i> Actionable Alterations</a>
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<a class="btn btn-sm download waves-effect waves-light"
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ng-href="{{apiLink}}utils/allCuratedGenes.txt"
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download><i
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class="fa fa-cloud-download"></i> All Curated Genes</a>
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</div>
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<h3 class="title">Annotating Your Files</h3>
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<div>You can annotate your data files (mutations, copy number alterations, fusions, and clinical data) with

‎app/views/main.html

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</div>
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<div class="levels">
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<div class="row">
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<div class="col-lg-2 col-md-2"></div>
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<div class="col-lg-8 col-md-8 has-inside-grid">
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<div class="col-lg-3 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'1'" gene-count="getGeneCountForLevel('1')" class="'level-1'" color="'#008D14'" desc="'FDA-approved'"></main-level>
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<div class="col-md-12 has-inside-grid">
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<div class="col-lg-2 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'1'" gene-count="getGeneCountForLevel('1')" class="'level-1'" desc="'FDA-approved'"></main-level>
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</div>
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<div class="col-lg-3 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'2'" gene-count="getGeneCountForLevel('2')" class="'level-2'" color="'#019192'" desc="'Standard care'"></main-level>
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<div class="col-lg-2 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'2'" gene-count="getGeneCountForLevel('2')" class="'level-2'" desc="'Standard care'"></main-level>
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</div>
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<div class="col-lg-3 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'3'" gene-count="getGeneCountForLevel('3')" class="'level-3'" color="'#794C87'" desc="'Clinical evidence'"></main-level>
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<div class="col-lg-2 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'3'" gene-count="getGeneCountForLevel('3')" class="'level-3'" desc="'Clinical evidence'"></main-level>
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</div>
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<div class="col-lg-3 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'4'" gene-count="getGeneCountForLevel('4')" class="'level-4'" color="'#424242'" desc="'Biological evidence'"></main-level>
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<div class="col-lg-2 col-md-6 col-sm-6 col-xs-12">
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<main-level level="'4'" gene-count="getGeneCountForLevel('4')" class="'level-4'" desc="'Biological evidence'"></main-level>
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</div>
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<div class="col-lg-2 col-sm-6 col-xs-12">
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<main-level level="'R1'" gene-count="getGeneCountForLevel('R1')" class="'level-R1'" desc="'Standard care'"></main-level>
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</div>
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<div class="col-lg-2 col-sm-6 col-xs-12">
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<main-level level="'R2'" gene-count="getGeneCountForLevel('R2')" class="'level-R2'" desc="'Clinical evidence'"></main-level>
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</div>
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</div>
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<div class="col-lg-2 col-md-2"></div>
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</div>
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</div>
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<div class="citation row">

‎app/views/news.html

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</p>
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<p ng-bind-html="data.citationURL"></p>
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</div>
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<h3>December 14, 2018</h3>
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<div>
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<ul>
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<li>Inclusion of <a href="#/gene/NTRK1">NTRK1</a> and <a href="#/gene/NTRK3">NTRK3</a> Level R2
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alterations to the Actionable Genes page
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</li>
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<li>Updated Actionable Genes
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<div class="row">
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<table class="table">
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<thead>
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<th class="col-lg-1 col-sm-2 col-xs-3">Level</th>
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<th class="col-lg-11 col-sm-10 col-xs-9">Update</th>
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</thead>
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<tbody>
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<tr ng-repeat="(key, value) in data.updatedActionableGenes['12142018']">
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<td>{{key}}</td>
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<td>
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<ul>
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<li ng-repeat="item in value"><span ng-bind-html="item"></span></li>
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</ul>
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</td>
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</tr>
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</tbody>
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</table>
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</div>
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</li>
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<li>Addition of {{data.newlyAddedGenes['12142018'].length}} new heme-associated genes:
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<div class="newly-added-genes">
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<span class="gene" ng-repeat="hugo in data.newlyAddedGenes['12142018']"><a
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href="#/gene/{{hugo}}">{{hugo}}</a></span>
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</div>
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</li>
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</ul>
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</div>
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<h3>November 2, 2018</h3>
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<div>
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<ul>

‎data/v1.18/README.md

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# v1.18
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## Related releases
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[OncoKB Public Website, December 14, 2018 Updates](https://github.com/oncokb/oncokb-public/releases/tag/0.13)
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[OncoKB Core/Curate v0.3.7 Release](https://github.com/oncokb/oncokb/releases/tag/v0.3.7)
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‎data/v1.18/allActionableVariants.json

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