diff --git a/src/app/components/analysis-panel/analysis-panel.component.html b/src/app/components/analysis-panel/analysis-panel.component.html
index 6d6245ab6ce7b37c1c8df6c2b4fd6e99ee5de6db..9aeb4cb9b2cd5088bfa1117ba1676f7d77e25db4 100644
--- a/src/app/components/analysis-panel/analysis-panel.component.html
+++ b/src/app/components/analysis-panel/analysis-panel.component.html
@@ -89,11 +89,11 @@
<i class="fas fa-wrench" aria-hidden="true"></i>
</span>
{{
- ["quick", "super", "connect", "connectSelected"].indexOf(
- task.info.algorithm
- ) === -1
- ? "Algorithm:"
- : "Method:"
+ ["quick", "super", "connect", "connectSelected"].indexOf(
+ task.info.algorithm
+ ) === -1
+ ? "Algorithm:"
+ : "Method:"
}}
{{ algorithmNames[task.info.algorithm] }}
</h4>
@@ -103,105 +103,105 @@
<div class="column">
<table class="table is-narrow">
<tbody>
- <tr
- *ngIf="
+ <tr
+ *ngIf="
result && result.geneInteractionDataset !== undefined
"
- >
- <td>Protein-Protein Interaction Dataset</td>
- <td>
- {{ result.geneInteractionDataset.name }} (Version
- {{ result.geneInteractionDataset.version }})
- </td>
- </tr>
- <tr
- *ngIf="
+ >
+ <td>Protein-Protein Interaction Dataset</td>
+ <td>
+ {{ result.geneInteractionDataset.name }} (Version
+ {{ result.geneInteractionDataset.version }})
+ </td>
+ </tr>
+ <tr
+ *ngIf="
result && result.drugInteractionDataset !== undefined
"
- >
- <td>Protein-Drug Interaction Dataset</td>
- <td>
- {{ result.drugInteractionDataset.name }} (Version
- {{ result.drugInteractionDataset.version }})
- </td>
- </tr>
- <tr *ngIf="task.info.parameters.resultSize !== undefined">
- <td>Result Size</td>
- <td>{{ task.info.parameters.resultSize }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.k !== undefined">
- <td>K</td>
- <td>{{ task.info.parameters.k }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.numTrees !== undefined">
- <td>Number of trees</td>
- <td>{{ task.info.parameters.numTrees }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.tolerance !== undefined">
- <td>Tolerance</td>
- <td>{{ task.info.parameters.tolerance }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.dampingFactor !== undefined">
- <td>Damping Factor</td>
- <td>{{ task.info.parameters.dampingFactor }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.maxDeg !== undefined">
- <td>Maximum Degree</td>
- <td>{{ task.info.parameters.maxDeg }}</td>
- </tr>
- <tr *ngIf="task.info.parameters.hubPenalty !== undefined">
- <td>Hub Penality</td>
- <td>{{ task.info.parameters.hubPenalty }}</td>
- </tr>
- <tr
- *ngIf="
+ >
+ <td>Protein-Drug Interaction Dataset</td>
+ <td>
+ {{ result.drugInteractionDataset.name }} (Version
+ {{ result.drugInteractionDataset.version }})
+ </td>
+ </tr>
+ <tr *ngIf="task.info.parameters.resultSize !== undefined">
+ <td>Result Size</td>
+ <td>{{ task.info.parameters.resultSize }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.k !== undefined">
+ <td>K</td>
+ <td>{{ task.info.parameters.k }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.numTrees !== undefined">
+ <td>Number of trees</td>
+ <td>{{ task.info.parameters.numTrees }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.tolerance !== undefined">
+ <td>Tolerance</td>
+ <td>{{ task.info.parameters.tolerance }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.dampingFactor !== undefined">
+ <td>Damping Factor</td>
+ <td>{{ task.info.parameters.dampingFactor }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.maxDeg !== undefined">
+ <td>Maximum Degree</td>
+ <td>{{ task.info.parameters.maxDeg }}</td>
+ </tr>
+ <tr *ngIf="task.info.parameters.hubPenalty !== undefined">
+ <td>Hub Penality</td>
+ <td>{{ task.info.parameters.hubPenalty }}</td>
+ </tr>
+ <tr
+ *ngIf="
task.info.parameters.includeIndirectDrugs !== undefined &&
task.info.target === 'drug'
"
- >
- <td>Include indirect drugs</td>
- <td>
- <i
- *ngIf="task.info.parameters.includeIndirectDrugs"
- class="fa fa-check"
- ></i>
- <i
- *ngIf="!task.info.parameters.includeIndirectDrugs"
- class="fa fa-times color-danger"
- ></i>
- </td>
- </tr>
- <tr
- *ngIf="
+ >
+ <td>Include indirect drugs</td>
+ <td>
+ <i
+ *ngIf="task.info.parameters.includeIndirectDrugs"
+ class="fa fa-check"
+ ></i>
+ <i
+ *ngIf="!task.info.parameters.includeIndirectDrugs"
+ class="fa fa-times color-danger"
+ ></i>
+ </td>
+ </tr>
+ <tr
+ *ngIf="
task.info.parameters.includeNonApprovedDrugs !==
undefined && task.info.target === 'drug'
"
- >
- <td>Include non-approved drugs</td>
- <td>
- <i
- *ngIf="task.info.parameters.includeNonApprovedDrugs"
- class="fa fa-check"
- ></i>
- <i
- *ngIf="!task.info.parameters.includeNonApprovedDrugs"
- class="fa fa-times color-danger"
- ></i>
- </td>
- </tr>
- <tr *ngIf="task.info.parameters.customEdges !== undefined">
- <td>Include all displayed edges</td>
- <td>
- <i
- *ngIf="task.info.parameters.customEdges"
- class="fa fa-check"
- ></i>
- <i
- *ngIf="!task.info.parameters.customEdges"
- class="fa fa-times color-danger"
- ></i>
- </td>
- </tr>
+ >
+ <td>Include non-approved drugs</td>
+ <td>
+ <i
+ *ngIf="task.info.parameters.includeNonApprovedDrugs"
+ class="fa fa-check"
+ ></i>
+ <i
+ *ngIf="!task.info.parameters.includeNonApprovedDrugs"
+ class="fa fa-times color-danger"
+ ></i>
+ </td>
+ </tr>
+ <tr *ngIf="task.info.parameters.customEdges !== undefined">
+ <td>Include all displayed edges</td>
+ <td>
+ <i
+ *ngIf="task.info.parameters.customEdges"
+ class="fa fa-check"
+ ></i>
+ <i
+ *ngIf="!task.info.parameters.customEdges"
+ class="fa fa-times color-danger"
+ ></i>
+ </td>
+ </tr>
</tbody>
</table>
</div>
@@ -224,18 +224,18 @@
</h4>
<table class="table is-narrow">
<tbody>
- <tr>
- <td>Number of Trees</td>
- <td>1</td>
- </tr>
- <tr>
- <td>Tolerance</td>
- <td>0</td>
- </tr>
- <tr>
- <td>Hub Penality</td>
- <td>1</td>
- </tr>
+ <tr>
+ <td>Number of Trees</td>
+ <td>1</td>
+ </tr>
+ <tr>
+ <td>Tolerance</td>
+ <td>0</td>
+ </tr>
+ <tr>
+ <td>Hub Penality</td>
+ <td>1</td>
+ </tr>
</tbody>
</table>
</div>
@@ -254,26 +254,26 @@
</h4>
<table class="table is-narrow">
<tbody>
- <tr>
- <td>Include indirect drugs</td>
- <td>
- <i class="fa fa-times"></i>
- </td>
- </tr>
- <tr>
- <td>Include non-approved drugs</td>
- <td>
- <i class="fa fa-check"></i>
- </td>
- </tr>
- <tr>
- <td>Hub Penality</td>
- <td>1</td>
- </tr>
- <tr>
- <td>Result Size</td>
- <td>10</td>
- </tr>
+ <tr>
+ <td>Include indirect drugs</td>
+ <td>
+ <i class="fa fa-times"></i>
+ </td>
+ </tr>
+ <tr>
+ <td>Include non-approved drugs</td>
+ <td>
+ <i class="fa fa-check"></i>
+ </td>
+ </tr>
+ <tr>
+ <td>Hub Penality</td>
+ <td>1</td>
+ </tr>
+ <tr>
+ <td>Result Size</td>
+ <td>10</td>
+ </tr>
</tbody>
</table>
</div>
diff --git a/src/app/components/analysis-panel/analysis-panel.component.ts b/src/app/components/analysis-panel/analysis-panel.component.ts
index 23ff59ce9977cd3066f47a077c9d4113aec5be2c..ca9d637f6c724844dd042add379adc7738e27b47 100644
--- a/src/app/components/analysis-panel/analysis-panel.component.ts
+++ b/src/app/components/analysis-panel/analysis-panel.component.ts
@@ -122,6 +122,8 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
public expressionMap: NodeAttributeMap;
+ public loading = false;
+
constructor(public legendService: LegendService, public networkHandler: NetworkHandlerService, public drugstoneConfig: DrugstoneConfigService, private http: HttpClient, public analysis: AnalysisService, public netex: NetexControllerService) {
}
@@ -172,160 +174,177 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
}
if (this.task && this.task.info.done) {
- this.result = await this.netex.getTaskResult(this.token);
- if (this.result.parameters.target === 'drug') {
- this.legendService.add_to_context('drug')
- } else {
- this.legendService.add_to_context('drugTarget')
- }
- const nodeAttributes = this.result.nodeAttributes || {};
-
- this.networkHandler.activeNetwork.seedMap = nodeAttributes.isSeed || {};
-
- // Reset
- this.nodeData = {nodes: null, edges: null};
- this.networkHandler.activeNetwork.networkEl.nativeElement.innerHTML = '';
- this.networkHandler.activeNetwork.networkInternal = null;
-
- // Create
- const {nodes, edges} = this.createNetwork(this.result);
- this.networkHandler.activeNetwork.inputNetwork = {nodes: nodes, edges: edges};
- this.nodeData.nodes = new vis.DataSet(nodes);
- this.nodeData.edges = new vis.DataSet(edges);
- const container = this.networkHandler.activeNetwork.networkEl.nativeElement;
- const isBig = nodes.length > 100 || edges.length > 100;
- const options = NetworkSettings.getOptions(isBig ? 'analysis-big' : 'analysis', this.myConfig.physicsOn);
- this.drugstoneConfig.config.physicsOn = !isBig;
-
- this.networkHandler.activeNetwork.networkInternal = new vis.Network(container, this.nodeData, options);
-
- this.networkHandler.activeNetwork.networkInternal.on('stabilizationIterationsDone', () => {
- if (!this.drugstoneConfig.config.physicsOn) {
- this.networkHandler.activeNetwork.updatePhysicsEnabled(false);
- }
- });
- this.tableDrugs = nodes.filter(e => e.drugstoneId && e.drugstoneType === 'drug');
- this.tableDrugs.forEach((r) => {
- r.rawScore = r.score;
- });
- this.tableProteins = nodes.filter(e => e.drugstoneId && e.drugstoneType === 'protein');
- this.tableSelectedProteins = [];
- this.tableProteins.forEach((r) => {
- r.rawScore = r.score;
- r.isSeed = this.networkHandler.activeNetwork.seedMap[r.id];
- const wrapper = getWrapperFromNode(r);
- if (this.analysis.inSelection(wrapper)) {
- this.tableSelectedProteins.push(r);
+ this.loading = true;
+ this.netex.getTaskResult(this.token).then(result => {
+ this.result = result;
+ if (this.result.parameters.target === 'drug') {
+ this.legendService.add_to_context('drug');
+ } else {
+ this.legendService.add_to_context('drugTarget');
}
- });
-
-
- this.tableHasScores = ['trustrank', 'closeness', 'degree', 'betweenness', 'quick', 'super']
- .indexOf(this.task.info.algorithm) !== -1;
- if (this.tableHasScores) {
- this.toggleNormalization(true);
- }
+ const nodeAttributes = this.result.nodeAttributes || {};
+
+ this.networkHandler.activeNetwork.seedMap = nodeAttributes.isSeed || {};
+
+ // Reset
+ this.nodeData = {nodes: null, edges: null};
+ this.networkHandler.activeNetwork.networkEl.nativeElement.innerHTML = '';
+ this.networkHandler.activeNetwork.networkInternal = null;
+ // Create
+ this.createNetwork(this.result).then(nw => {
+ const nodes = nw.nodes;
+ const edges = nw.edges;
+
+ this.networkHandler.activeNetwork.inputNetwork = {nodes: nodes, edges: edges};
+ this.nodeData.nodes = new vis.DataSet(nodes);
+ this.nodeData.edges = new vis.DataSet(edges);
+ const container = this.networkHandler.activeNetwork.networkEl.nativeElement;
+ const isBig = nodes.length > 100 || edges.length > 100;
+ const options = NetworkSettings.getOptions(isBig ? 'analysis-big' : 'analysis', this.myConfig);
+ // @ts-ignore
+ options.groups = this.drugstoneConfig.config.nodeGroups;
+ // @ts-ignore
+ for (const g of Object.values(options.groups)) {
+ // @ts-ignore
+ delete g.renderer
+ }
+ this.drugstoneConfig.config.physicsOn = !isBig;
+ this.networkHandler.activeNetwork.networkInternal = new vis.Network(container, this.nodeData, options);
+ this.networkHandler.activeNetwork.networkInternal.on('stabilizationIterationsDone', () => {
+ if (!this.drugstoneConfig.config.physicsOn) {
+ this.networkHandler.activeNetwork.updatePhysicsEnabled(false);
+ }
+ });
+ this.tableDrugs = nodes.filter(e => e.drugstoneId && e.drugstoneType === 'drug');
+ this.tableDrugs.forEach((r) => {
+ r.rawScore = r.score;
+ });
+ this.tableProteins = nodes.filter(e => e.drugstoneId && e.drugstoneType === 'protein');
+ this.tableSelectedProteins = [];
+ this.tableProteins.forEach((r) => {
+ r.rawScore = r.score;
+ r.isSeed = this.networkHandler.activeNetwork.seedMap[r.id];
+ const wrapper = getWrapperFromNode(r);
+ if (this.analysis.inSelection(wrapper)) {
+ this.tableSelectedProteins.push(r);
+ }
+ });
- this.networkHandler.activeNetwork.networkInternal.on('deselectNode', (properties) => {
- this.showDetailsChange.emit(null);
- });
- this.networkHandler.activeNetwork.networkInternal.on('doubleClick', (properties) => {
- const nodeIds: Array<string> = properties.nodes;
- if (nodeIds.length > 0) {
- const nodeId = nodeIds[0];
- const node = this.nodeData.nodes.get(nodeId);
- if (node.nodeType === 'drug' || node.drugstoneId === undefined || node.drugstoneType !== 'protein') {
- return;
+ this.tableHasScores = ['trustrank', 'closeness', 'degree', 'betweenness', 'quick', 'super']
+ .indexOf(this.task.info.algorithm) !== -1;
+ if (this.tableHasScores) {
+ this.toggleNormalization(true);
}
- const wrapper = getWrapperFromNode(node);
- if (this.analysis.inSelection(wrapper)) {
- this.analysis.removeItems([wrapper]);
- this.analysis.getCount();
- } else {
- this.analysis.addItems([wrapper]);
- this.analysis.getCount();
- }
- }
- });
-
- this.networkHandler.activeNetwork.networkInternal.on('click', (properties) => {
- const selectedNodes = this.nodeData.nodes.get(properties.nodes);
- if (selectedNodes.length > 0) {
- this.showDetailsChange.emit(getWrapperFromNode(selectedNodes[0]));
- } else {
- this.showDetailsChange.emit(null);
- }
- });
+ this.networkHandler.activeNetwork.networkInternal.setData({nodes: undefined, edge: undefined});
+ setTimeout(() => {
+ this.networkHandler.activeNetwork.networkInternal.setData(this.nodeData);
+ }, 1000);
- this.analysis.subscribeList((items, selected) => {
- // return if analysis panel is closed or no nodes are loaded
- if (!this.token) {
- return;
- }
+ this.networkHandler.activeNetwork.networkInternal.on('deselectNode', (properties) => {
+ this.showDetailsChange.emit(null);
+ });
- if (selected !== null) {
- const updatedNodes: Node[] = [];
- for (const item of items) {
- const node = this.nodeData.nodes.get(item.id);
- if (!node) {
- continue;
+ this.networkHandler.activeNetwork.networkInternal.on('doubleClick', (properties) => {
+ const nodeIds: Array<string> = properties.nodes;
+ if (nodeIds.length > 0) {
+ const nodeId = nodeIds[0];
+ const node = this.nodeData.nodes.get(nodeId);
+ if (node.nodeType === 'drug' || node.drugstoneId === undefined || node.drugstoneType !== 'protein') {
+ return;
+ }
+ const wrapper = getWrapperFromNode(node);
+ if (this.analysis.inSelection(wrapper)) {
+ this.analysis.removeItems([wrapper]);
+ this.analysis.getCount();
+ } else {
+ this.analysis.addItems([wrapper]);
+ this.analysis.getCount();
+ }
}
- const pos = this.networkHandler.activeNetwork.networkInternal.getPositions([item.id]);
- node.x = pos[item.id].x;
- node.y = pos[item.id].y;
- const isSeed = this.networkHandler.activeNetwork.highlightSeeds ? this.networkHandler.activeNetwork.seedMap[node.id] : false;
- const nodeStyled = NetworkSettings.getNodeStyle(
- node,
- this.myConfig,
- isSeed,
- selected,
- this.networkHandler.activeNetwork.getGradient(item.id),
- this.networkHandler.activeNetwork.nodeRenderer
- )
- updatedNodes.push(nodeStyled);
- }
- this.nodeData.nodes.update(updatedNodes);
-
- const proteinSelection = this.tableSelectedProteins;
- for (const item of items) {
- // TODO: Refactor!
- const found = proteinSelection.findIndex((i) => getProteinNodeId(i) === item.id);
- const tableItem = this.tableProteins.find((i) => getProteinNodeId(i) === item.id);
- if (selected && found === -1 && tableItem) {
- proteinSelection.push(tableItem);
- }
- if (!selected && found !== -1 && tableItem) {
- proteinSelection.splice(found, 1);
+ });
+
+ this.networkHandler.activeNetwork.networkInternal.on('click', (properties) => {
+ const selectedNodes = this.nodeData.nodes.get(properties.nodes);
+ if (selectedNodes.length > 0) {
+ this.showDetailsChange.emit(getWrapperFromNode(selectedNodes[0]));
+ } else {
+ this.showDetailsChange.emit(null);
}
- }
- this.tableSelectedProteins = [...proteinSelection];
- } else {
- // else: selected is null
- const updatedNodes = [];
- this.nodeData.nodes.forEach((node) => {
- const isSeed = this.networkHandler.activeNetwork.highlightSeeds ? this.networkHandler.activeNetwork.seedMap[node.id] : false;
- const nodeStyled = NetworkSettings.getNodeStyle(
- node,
- this.myConfig,
- isSeed,
- selected,
- this.networkHandler.activeNetwork.getGradient(node.id),
- this.networkHandler.activeNetwork.nodeRenderer
- )
- updatedNodes.push(nodeStyled);
});
- this.nodeData.nodes.update(updatedNodes);
- const proteinSelection = [];
- for (const item of items) {
- const tableItem = this.tableProteins.find((i) => getProteinNodeId(i) === item.id);
- if (tableItem) {
- proteinSelection.push(tableItem);
+ this.analysis.subscribeList((items, selected) => {
+ // return if analysis panel is closed or no nodes are loaded
+ if (!this.token) {
+ return;
}
- }
- this.tableSelectedProteins = [...proteinSelection];
- }
+
+ if (selected !== null) {
+ const updatedNodes: Node[] = [];
+ for (const item of items) {
+ const node = this.nodeData.nodes.get(item.id);
+ if (!node) {
+ continue;
+ }
+ const pos = this.networkHandler.activeNetwork.networkInternal.getPositions([item.id]);
+ node.x = pos[item.id].x;
+ node.y = pos[item.id].y;
+ const isSeed = this.networkHandler.activeNetwork.highlightSeeds ? this.networkHandler.activeNetwork.seedMap[node.id] : false;
+ const nodeStyled = NetworkSettings.getNodeStyle(
+ node,
+ this.myConfig,
+ isSeed,
+ selected,
+ this.networkHandler.activeNetwork.getGradient(item.id),
+ this.networkHandler.activeNetwork.nodeRenderer
+ )
+ updatedNodes.push(nodeStyled);
+ }
+ this.nodeData.nodes.update(updatedNodes);
+
+ const proteinSelection = this.tableSelectedProteins;
+ for (const item of items) {
+ // TODO: Refactor!
+ const found = proteinSelection.findIndex((i) => getProteinNodeId(i) === item.id);
+ const tableItem = this.tableProteins.find((i) => getProteinNodeId(i) === item.id);
+ if (selected && found === -1 && tableItem) {
+ proteinSelection.push(tableItem);
+ }
+ if (!selected && found !== -1 && tableItem) {
+ proteinSelection.splice(found, 1);
+ }
+ }
+ this.tableSelectedProteins = [...proteinSelection];
+ } else {
+ // else: selected is null
+ const updatedNodes = [];
+ this.nodeData.nodes.forEach((node) => {
+ const isSeed = this.networkHandler.activeNetwork.highlightSeeds ? this.networkHandler.activeNetwork.seedMap[node.id] : false;
+ if (!isSeed)
+ return
+ const nodeStyled = NetworkSettings.getNodeStyle(
+ node,
+ this.myConfig,
+ isSeed,
+ selected,
+ this.networkHandler.activeNetwork.getGradient(node.id),
+ this.networkHandler.activeNetwork.nodeRenderer
+ );
+ updatedNodes.push(nodeStyled);
+ });
+ this.nodeData.nodes.update(updatedNodes);
+
+ const proteinSelection = [];
+ for (const item of items) {
+ const tableItem = this.tableProteins.find((i) => getProteinNodeId(i) === item.id);
+ if (tableItem) {
+ proteinSelection.push(tableItem);
+ }
+ }
+ this.tableSelectedProteins = [...proteinSelection];
+ }
+ });
+ });
});
}
}
@@ -401,7 +420,7 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
* @param result
* @returns
*/
- public createNetwork(result: any): { edges: any[], nodes: any[] } {
+ public async createNetwork(result: any): Promise<{ edges: any[]; nodes: any[]; }> {
const config = result.parameters.config;
this.myConfig = config;
@@ -417,6 +436,7 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
this.proteins = [];
this.effects = [];
const network = result.network;
+ network.nodes = [...new Set<string>(network.nodes)]
const details = attributes.details || {};
const nodeIdMap = {}
@@ -427,29 +447,33 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
nodeIdMap[id] = e[1][identifier][0]
})
})
- for (const nodeId of Object.keys(details)) {
- const nodeDetails = details[nodeId]
- nodeDetails.id = nodeDetails.id ? nodeDetails.id : (typeof nodeDetails.drugstoneId === 'string' ? nodeDetails.drugstoneId : nodeDetails.drugstoneId[0]);
- if (nodeDetails.drugstoneId && nodeDetails.drugstoneType === 'protein') {
- // node is protein from database, has been mapped on init to backend protein from backend
- // or was found during analysis
- // FIXME connectorNodes are not visualized correctly
- nodeDetails.group = result.targetNodes && result.targetNodes.indexOf(nodeId) !== -1 ? 'foundNode' : (nodeDetails.group ? nodeDetails.group : 'connectorNode');
- nodeDetails.label = nodeDetails.label ? nodeDetails.label : nodeDetails[identifier];
- nodeDetails.id = nodeDetails[identifier][0] ? nodeDetails[identifier][0] : nodeDetails.id;
- this.proteins.push(nodeDetails);
- } else if (nodeDetails.drugstoneId && nodeDetails.drugstoneType === 'drug') {
- // node is drug, was found during analysis
- nodeDetails.type = 'Drug';
- nodeDetails.group = 'foundDrug';
+ for (const nodeId of network.nodes) {
+ if (details[nodeId]) {
+ const nodeDetails = details[nodeId]
+ nodeDetails.id = nodeDetails.id ? nodeDetails.id : (typeof nodeDetails.drugstoneId === 'string' ? nodeDetails.drugstoneId : nodeDetails.drugstoneId[0]);
+ if (nodeDetails.drugstoneId && nodeDetails.drugstoneType === 'protein') {
+ // node is protein from database, has been mapped on init to backend protein from backend
+ // or was found during analysis
+ // FIXME connectorNodes are not visualized correctly
+ nodeDetails.group = result.targetNodes && result.targetNodes.indexOf(nodeId) !== -1 ? 'foundNode' : (nodeDetails.group ? nodeDetails.group : 'connectorNode');
+ nodeDetails.label = nodeDetails.label ? nodeDetails.label : nodeDetails[identifier];
+ nodeDetails.id = nodeDetails[identifier][0] ? nodeDetails[identifier][0] : nodeDetails.id;
+ this.proteins.push(nodeDetails);
+ } else if (nodeDetails.drugstoneId && nodeDetails.drugstoneType === 'drug') {
+ // node is drug, was found during analysis
+ nodeDetails.type = 'Drug';
+ nodeDetails.group = 'foundDrug';
+ } else {
+ // node is custom input from user, could not be mapped to backend protein
+ nodeDetails.group = nodeDetails.group ? nodeDetails.group : 'default';
+ nodeDetails.label = nodeDetails.label ? nodeDetails.label : nodeDetails[identifier]
+ }
+ // further analysis and the button function can be used to highlight seeds
+ // option to use scores[node] as gradient, but sccores are very small
+ nodes.push(NetworkSettings.getNodeStyle(nodeDetails as Node, config, false, false, 1, this.networkHandler.activeNetwork.nodeRenderer))
} else {
- // node is custom input from user, could not be mapped to backend protein
- nodeDetails.group = nodeDetails.group ? nodeDetails.group : 'default';
- nodeDetails.label = nodeDetails.label ? nodeDetails.label : nodeDetails[identifier]
+ console.log("Missing details for " + nodeId)
}
- // further analysis and the button function can be used to highlight seeds
- // option to use scores[node] as gradient, but sccores are very small
- nodes.push(NetworkSettings.getNodeStyle(nodeDetails as Node, config, false, false, 1, this.networkHandler.activeNetwork.nodeRenderer))
}
diff --git a/src/app/components/network/network.component.ts b/src/app/components/network/network.component.ts
index b4dd056b2e6974359c79de8f929ed9498ba37353..331fc3bb7e632d1dd2f44f5ef3ff343e78983a4a 100644
--- a/src/app/components/network/network.component.ts
+++ b/src/app/components/network/network.component.ts
@@ -80,6 +80,8 @@ export class NetworkComponent implements OnInit {
public nodeRenderer = null;
+ public loading = false
+
constructor(public configService: DrugstoneConfigService, public legendService: LegendService, public networkHandler: NetworkHandlerService, public analysis: AnalysisService, public drugstoneConfig: DrugstoneConfigService, public netex: NetexControllerService, public omnipath: OmnipathControllerService) {
}
@@ -88,6 +90,10 @@ export class NetworkComponent implements OnInit {
this.networkSidebarOpen = this.configService.config.expandNetworkMenu || false;
}
+ setLoading(bool: boolean): void {
+ this.loading = bool;
+ }
+
async getInteractions(key: InteractionDatabase) {
let edges = [];
if (key === 'omnipath') {
@@ -101,9 +107,10 @@ export class NetworkComponent implements OnInit {
updateQueryItems() {
this.queryItems = [];
- this.currentViewNodes.forEach((protein) => {
- this.queryItems.push(getWrapperFromNode(protein));
- });
+ if (this.currentViewNodes)
+ this.currentViewNodes.forEach((protein) => {
+ this.queryItems.push(getWrapperFromNode(protein));
+ });
}
public saveAddNodes(nodeList: Node[]) {
@@ -341,25 +348,25 @@ export class NetworkComponent implements OnInit {
this.nodeRenderer = null;
const updatedNodes = [];
// for (const item of this.proteins) {
- for (const item of this.currentViewProteins) {
- if (item.drugstoneId === undefined) {
+ for (const node of this.nodeData.nodes.get().filter(n => n.drugstoneType === 'protein')) {
+ if (node.drugstoneId === undefined) {
// nodes that are not mapped to backend remain untouched
continue;
}
- const node: Node = this.nodeData.nodes.get(item.id);
+ // const node: Node = this.nodeData.nodes.get(item.id);
if (!node) {
continue;
}
- const pos = this.networkInternal.getPositions([item.id]);
- node.x = pos[item.id].x;
- node.y = pos[item.id].y;
+ const pos = this.networkInternal.getPositions([node.id]);
+ node.x = pos[node.id].x;
+ node.y = pos[node.id].y;
Object.assign(
node,
NetworkSettings.getNodeStyle(
node,
this.drugstoneConfig.config,
- false,
- this.analysis.inSelection(getWrapperFromNode(item)),
+ node.isSeed && this.networkHandler.activeNetwork.highlightSeeds,
+ this.analysis.inSelection(getWrapperFromNode(node)),
1.0,
this.nodeRenderer
)
@@ -422,7 +429,7 @@ export class NetworkComponent implements OnInit {
NetworkSettings.getNodeStyle(
node,
this.drugstoneConfig.config,
- node.isSeed,
+ node.isSeed && this.networkHandler.activeNetwork.highlightSeeds,
this.analysis.inSelection(wrapper),
gradient,
this.nodeRenderer));
@@ -461,18 +468,18 @@ export class NetworkComponent implements OnInit {
this.legendService.add_to_context('seeds')
else
this.legendService.remove_from_context('seeds')
- for (const item of this.currentViewProteins) {
- if (item.drugstoneId === undefined) {
+ for (const node of this.nodeData.nodes.get().filter(n => n.drugstoneType === 'protein')) {
+ if (node.drugstoneId === undefined) {
// nodes that are not mapped to backend remain untouched
continue;
}
- const node: Node = this.nodeData.nodes.get(item.id);
+ // const node: Node = this.nodeData.nodes.get(item.id);
if (!node) {
continue;
}
- const pos = this.networkHandler.activeNetwork.networkInternal.getPositions([item.id]);
- node.x = pos[item.id].x;
- node.y = pos[item.id].y;
+ const pos = this.networkHandler.activeNetwork.networkInternal.getPositions([node.id]);
+ node.x = pos[node.id].x;
+ node.y = pos[node.id].y;
const isSeed = this.highlightSeeds ? this.seedMap[node.id] : false;
Object.assign(
node,
@@ -480,8 +487,8 @@ export class NetworkComponent implements OnInit {
node,
this.drugstoneConfig.config,
isSeed,
- this.analysis.inSelection(getWrapperFromNode(item)),
- this.getGradient(item.id),
+ this.analysis.inSelection(getWrapperFromNode(node)),
+ this.getGradient(node.id),
this.nodeRenderer
)
)
diff --git a/src/app/dialogs/launch-analysis/launch-analysis.component.ts b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
index 752cdf6ef2c3a31c590d983dba855b2d2af6592a..132a99d73ad53e0c63efe011873c4368ff0b86f3 100644
--- a/src/app/dialogs/launch-analysis/launch-analysis.component.ts
+++ b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
@@ -116,7 +116,6 @@ export class LaunchAnalysisComponent implements OnInit, OnChanges {
config: this.drugstoneConfig.config,
input_network: this.networkHandler.activeNetwork.inputNetwork
};
- console.log(parameters)
parameters.ppi_dataset = this.drugstoneConfig.config.interactionProteinProtein;
parameters.pdi_dataset = this.drugstoneConfig.config.interactionDrugProtein;
parameters.licenced = this.drugstoneConfig.config.licensedDatasets;
diff --git a/src/app/interfaces.ts b/src/app/interfaces.ts
index 0a3895278a5d9480682e1d2db9a76c5e3f7c1339..cf6f8832a480353c55b74aba5228ad8b164a68c0 100644
--- a/src/app/interfaces.ts
+++ b/src/app/interfaces.ts
@@ -22,6 +22,7 @@ export interface Node {
borderWidth: number;
borderWidthSelected: number;
opacity?: number;
+ shadow?:any;
font: {
color: string;
size: number;
@@ -43,7 +44,7 @@ export interface NetworkData {
edges: NetworkEdge[]
}
-export type NodeType= 'protein' | 'drug' | 'disorder' | 'other'
+export type NodeType = 'protein' | 'drug' | 'disorder' | 'other'
export type NetworkType = 'explorer' | 'analysis'
@@ -191,7 +192,7 @@ export interface Wrapper {
label: string;
type?: string;
symbol?: Array<string>;
- drugstoneId?: Array<string> |string;
+ drugstoneId?: Array<string> | string;
drugstoneType: NodeType,
ensg?: Array<string>;
entrez?: Array<string>;
diff --git a/src/app/network-settings.ts b/src/app/network-settings.ts
index 971f137d242d821f91144684781f603ad0bbf4d6..01d0b927b4fb78ce1583de2e9f11add359c1a6c3 100644
--- a/src/app/network-settings.ts
+++ b/src/app/network-settings.ts
@@ -1,8 +1,8 @@
-import { getGradientColor } from './utils';
+import {getGradientColor} from './utils';
import {
Node,
} from './interfaces';
-import { IConfig, defaultConfig } from './config';
+import {IConfig, defaultConfig} from './config';
import * as merge from 'lodash/fp/merge';
export class NetworkSettings {
@@ -60,24 +60,29 @@ export class NetworkSettings {
stabilization: true
};
- static getOptions(network: 'main' | 'analysis' | 'analysis-big', physicsOn) {
+ static getOptions(network: 'main' | 'analysis' | 'analysis-big', config) {
+ const physicsOn = config.physicsOn;
+ const groups = config.nodeGroups;
if (network === 'main') {
return {
layout: this.mainLayout,
edges: this.mainEdges,
physics: physicsOn || this.mainPhysics,
+ groups,
};
} else if (network === 'analysis') {
return {
layout: this.analysisLayout,
edges: this.analysisEdges,
physics: physicsOn || this.analysisPhysics,
+ groups,
};
} else if (network === 'analysis-big') {
return {
layout: this.analysisLayout,
edges: this.analysisEdges,
physics: physicsOn || this.analysisBigPhysics,
+ groups,
};
}
}
@@ -92,41 +97,77 @@ export class NetworkSettings {
// delete possible old styles
Object.keys(config.nodeGroups.default).forEach(e => delete node[e]);
- // set group styles
- if (node.group === 'default') {
- node = merge(node, config.nodeGroups.default);
- } else {
- node = merge(node, config.nodeGroups[node.group]);
- }
-
// note that seed and selected node style are applied after the node style is fetched.
// this allows to overwrite only attributes of interest, therefore in e.g. seedNode group
// certain attributes like shape can remain undefined
// use lodash merge to not lose deep attributes, e.g. "font.size"
+ // @ts-ignore
+ if (node._group)
+ // @ts-ignore
+ node.group = node._group
+ // @ts-ignore
+ if (node._shadow) { // @ts-ignore
+ node.shadow = node._shadow
+ }else{
+ if (config.nodeGroups[node.group].shadow) {
+ node.shadow = {enabled: config.nodeGroups[node.group].shadow}
+ node.shadow.color = 'rgba(0,0,0,0.5)'
+ } else {
+ node.shadow = {color: 'rgba(0,0,0,0.5)'}
+ }
+ }
if (isSeed) {
// apply seed node style to node
- node = merge(node, config.nodeGroups.seedNode);
+ // @ts-ignore
+ node._group = node.group
+ node.group = 'seedNode'
}
// selection on purpose after seed style, so seed style will be combined with selection style
if (isSelected) {
+ // @ts-ignore
+ node._group = node.group
// apply selected node style to node
- node = merge(node, config.nodeGroups.selectedNode);
+ node.group = 'selectedNode'
+ if (config.nodeGroups[node.group].shadow) {
+ node.shadow = {enabled: config.nodeGroups[node.group].shadow}
+ node.shadow.color = '#000000'
+ } else {
+ node.shadow = {color: '#000000'}
+ }
}
+
// show image if image url is given. If seed nodes are highlighted, ignore image property
if (node.image && !isSeed) {
node.shape = 'image';
}
- // use opactiy as gradient
- if (gradient === null) {
- node.opacity = 0
- } else {
- node.opacity = gradient
- }
+
// custom ctx renderer for e.g. pie chart
if (renderer !== null) {
+ // @ts-ignore
node.shape = 'custom';
+ node.color = {opacity: gradient}
+ node.opacity = gradient
+ if (isSeed) {
+ // apply seed node style to node
+ // @ts-ignore
+ node.color = config.nodeGroups[node.group].color
+ }else{
+ delete node.color
+ }
+ // @ts-ignore
+ node._shadow = node.shadow
+ if (config.nodeGroups[node.group].shadow) {
+ node.shadow = {enabled: config.nodeGroups[node.group].shadow}
+ node.shadow.color = 'rgba(0,0,0,0.5)'
+ } else {
+ node.shadow = {color: 'rgba(0,0,0,0.5)'}
+ }
node.ctxRenderer = renderer;
+ } else {
+ node.opacity = undefined
+ delete node.ctxRenderer;
}
+
return node;
}
}
diff --git a/src/app/pages/explorer-page/explorer-page.component.ts b/src/app/pages/explorer-page/explorer-page.component.ts
index bd300ee8eaecc2f71b2868c236a32208e067892f..05da418ca7e63014c7d5ab11a197b4c11ab55022 100644
--- a/src/app/pages/explorer-page/explorer-page.component.ts
+++ b/src/app/pages/explorer-page/explorer-page.component.ts
@@ -24,8 +24,8 @@ import {NetexControllerService} from 'src/app/services/netex-controller/netex-co
import {removeDuplicateObjectsFromList} from '../../utils';
import * as merge from 'lodash/fp/merge';
import * as JSON5 from 'json5';
-import { DrugstoneConfigService } from 'src/app/services/drugstone-config/drugstone-config.service';
-import { NetworkHandlerService } from 'src/app/services/network-handler/network-handler.service';
+import {DrugstoneConfigService} from 'src/app/services/drugstone-config/drugstone-config.service';
+import {NetworkHandlerService} from 'src/app/services/network-handler/network-handler.service';
declare var vis: any;
@@ -164,19 +164,6 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
updatedNodes.push(nodeStyled);
}
this.nodeData.nodes.update(updatedNodes);
- } else {
- const updatedNodes = [];
- this.nodeData.nodes.forEach((node) => {
- // const nodeSelected = this.analysis.idInSelection(node.id);
- // if (node.group == 'default') {
- // Object.assign(node, this.drugstoneConfig.config.nodeGroups.default);
- // } else {
- // Object.assign(node, this.drugstoneConfig.config.nodeGroups[node.group]);
- // };
- Object.assign(node, this.drugstoneConfig.config.nodeGroups[node.group]);
-
- });
- this.nodeData.nodes.update(updatedNodes);
}
});
}
@@ -261,8 +248,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
this.networkHandler.activeNetwork.selectedWrapper = null;
// getNetwork synchronizes the input network with the database
await this.getNetwork();
- this.proteinData = new ProteinNetwork(this.networkHandler.activeNetwork.inputNetwork.nodes,this.networkHandler.activeNetwork.inputNetwork.edges);
-
+ this.proteinData = new ProteinNetwork(this.networkHandler.activeNetwork.inputNetwork.nodes, this.networkHandler.activeNetwork.inputNetwork.edges);
if (this.networkHandler.activeNetwork.networkPositions) {
this.proteinData.updateNodePositions(this.networkHandler.activeNetwork.networkPositions);
}
@@ -302,16 +288,16 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
return true
})
- // @ts-ignore
+ // @ts-ignore
if (!this.drugstoneConfig.selfReferences) {
- edges = edges.filter(el => el.from !== el.to);
- }
+ edges = edges.filter(el => el.from !== el.to);
+ }
this.nodeData.nodes = new vis.DataSet(nodes);
this.nodeData.edges = new vis.DataSet(edges);
const container = this.networkHandler.activeNetwork.networkEl.nativeElement;
- const options = NetworkSettings.getOptions('main', this.drugstoneConfig.config.physicsOn);
+ const options = NetworkSettings.getOptions('main', this.drugstoneConfig.config);
this.networkHandler.activeNetwork.networkInternal = new vis.Network(container, this.nodeData, options);
@@ -410,7 +396,6 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
network.nodes.forEach((node) => {
// set node label to original id before node id will be set to netex id
node.label = node.label ? node.label : node.id;
-
});
// adjust edge labels accordingly and filter
@@ -574,14 +559,14 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
//TODO change to access through network service
@ViewChild('analysisPanel') analysisPanel;
- getNodes() :any {
+ getNodes(): any {
if (this.selectedAnalysisToken && this.analysisPanel)
return this.analysisPanel.getResultNodes()
return this.networkHandler.activeNetwork.inputNetwork.nodes;
}
- getEdges() :any {
- if(this.selectedAnalysisToken && this.analysisPanel)
+ getEdges(): any {
+ if (this.selectedAnalysisToken && this.analysisPanel)
return this.analysisPanel.getResultEdges()
return this.networkHandler.activeNetwork.inputNetwork.edges
}
diff --git a/src/app/services/netex-controller/netex-controller.service.ts b/src/app/services/netex-controller/netex-controller.service.ts
index 8c9864b0c44b27027d0a6744a2310299ebf4caf9..de49c7b14fae14251b32c5dc46c08723faa08936 100644
--- a/src/app/services/netex-controller/netex-controller.service.ts
+++ b/src/app/services/netex-controller/netex-controller.service.ts
@@ -20,7 +20,7 @@ export class NetexControllerService {
return this.http.post<any>(`${environment.backend}tasks/`, {tokens: JSON.stringify(tokens)}).toPromise();
}
- public async getTaskResult(token): Promise<any> {
+ public getTaskResult(token) {
/**
* returns promise of task result of COMPLETED task
*/
diff --git a/src/index.html b/src/index.html
index c1f77a357967d3d484f724238a6d7b7f00ff4157..f00e735faa639d9e9d747e71eafbcbb590621b3f 100644
--- a/src/index.html
+++ b/src/index.html
@@ -92,9 +92,9 @@
<drugst-one id="netexp1"
pluginId="2"
- groups='{"nodeGroups":{"patient":{"type":"patient","color":"#000000","font":{"color":"#000000"},"groupName":"Patient","shape":"image","image":"https://static.thenounproject.com/png/22780-200.png"},"condition":{"type":"condition","color":"#000000","font":{"color":"#000000"},"groupName":"Condition","shape":"text"},"important":{"type":"gene","color":"#ff881f","font":{"color":"#000000"},"groupName":"Important Gene","shape":"ellipse"},"gene":{"type":"gene","color":"#4da300","font":{"color":"#f0f0f0"},"groupName":"Gene","shape":"circle"},"foundDrug":{"type":"drug","color":"#F12590","font":{"color":"#000000"},"groupName":"Drug","shape":"diamond"}},"edgeGroups":{"genotype":{"color":"#000000","groupName":"Relevant Gene"},"has-condition":{"color":"#000000","groupName":"Has Condition","dashes":[2,2]},"default":{"color":"#000000","groupName":"default edge"},"ggi":{"color":"#000000","groupName":"Interaction","dashes":[3,2]}}}'
- config='{"expandNetworkMenu": false, "showSimpleAnalysis": true, "licensedDatasets": false, "physicsOn":false,"identifier":"symbol","title":"Breast cancer example network","nodeShadow":true,"edgeShadow":false,"autofillEdges":true,"showLegend":true}'
- network='{"nodes":[{"id": "FOXP3"},{"id":"patient-1","group":"patient","x":592,"y":446},{"id":"patient-2","group":"patient","x":235,"y":87},{"id":"patient-3","group":"patient","x":105,"y":369},{"id":"ATM","label":"ATM","group":"gene","x":289,"y":242},{"id":"BARD1","label":"BARD1","group":"gene","x":44,"y":250},{"id":"BRCA1","label":"BRCA1","group":"gene","x":466,"y":576},{"id":"BRCA2","label":"BRCA2","group":"gene","x":507,"y":285},{"id":"BRIP1","label":"BRIP1","group":"gene","x":54,"y":474},{"id":"CHEK2","label":"CHEK2","group":"gene","x":216,"y":590},{"id":"CDH1","label":"CDH1","group":"gene","x":320,"y":-57},{"id":"NF1","label":"NF1","group":"gene","x":481,"y":111},{"id":"NBN","label":"NBN","group":"gene","x":-57,"y":314},{"id":"PALB2","label":"PALB2","group":"gene","x":450,"y":190},{"id":"PTEN","label":"PTEN","group":"important","x":305,"y":494},{"id":"RAD51C","label":"RAD51C","group":"gene","x":182,"y":-90},{"id":"RAD51D","label":"RAD51D","group":"gene","x":368,"y":73},{"id":"STK11","label":"STK11","group":"gene","x":686,"y":330},{"id":"TP53","label":"TP53","group":"important","x":333,"y":316},{"id":"subtype-1","label":"Subtype 1","group":"condition","x":556,"y":171},{"id":"subtype-2","label":"Subtype 2","group":"condition","x":-87,"y":221}],"edges":[{"from":"PTEN","to":"NBN","group":"ggi"}, {"from":"patient-3","to":"subtype-2","group":"has-condition"}]}'
+ groups='{"nodeGroups":{"important":{"type":"gene","color":"#ff881f","font":{"color":"#000000"},"groupName":"Seed","shape":"star"},"gene":{"type":"gene","color":"#4da300","font":{"color":"#f0f0f0"},"groupName":"Discovered target","shape":"circle"},"foundDrug":{"type":"drug","color":"#F12590","font":{"color":"#000000"},"groupName":"Drug","shape":"diamond"}},"edgeGroups":{"default":{"color":"#000000","groupName":"default edge"}}}'
+ config='{"identifier":"symbol","title":"ROBUST output network", "taskDrugName": "Drug Search", "showLegendNodes": true, "showLegendEdges": true, "showSidebar": "left", "showOverview": true, "legendPos": "left", "legendClass": "legend", "showQuery": true, "showItemSelector": true,"showSimpleAnalysis": false,"showAdvAnalysis": true,"showSelection": true,"showTasks": true,"showNetworkMenu": "right","showLegend": true,"showNetworkMenuButtonExpression": true, "showNetworkMenuButtonScreenshot": true,"showNetworkMenuButtonExportGraphml": true,"showNetworkMenuButtonAdjacentDrugs": true,"showNetworkMenuButtonCenter": true,"showConnectGenes": false,"networkMenuButtonAdjacentDrugsLabel": "Drugs","showNetworkMenuButtonAdjacentDisordersProteins": true,"networkMenuButtonAdjacentDisordersProteinsLabel": "Disorders (protein)","showNetworkMenuButtonAdjacentDisordersDrugs": true,"networkMenuButtonAdjacentDisordersDrugsLabel": "Disorders (drug)","showNetworkMenuButtonAnimation": true,"networkMenuButtonAnimationLabel": "Animation", "autofillEdges": false, "physicsOn": false,"useNedrexLicenced": true,"selfReferences": false, "interactionDrugProtein": "NeDRex", "indicationDrugDisorder": "NeDRex","nodeShadow": true,"edgeShadow": true, "algorithms": {"drug": ["trustrank", "closeness", "degree", "proximity"], "drug-target": ["trustrank", "multisteiner", "keypathwayminer", "degree", "closeness", "betweenness"]}, "associatedProteinDisorder": "NeDRex", "expandNetworkMenu": true}'
+ network='{"nodes": [{"id": "UBE2I", "group": "gene"}, {"id": "EEF1A1", "group": "gene"}, {"id": "KDM5A", "group": "gene"}, {"id": "THOC2", "group": "gene"}, {"id": "XPO1", "group": "gene"}, {"id": "RPL4", "group": "gene"}, {"id": "TOP1", "group": "gene"}, {"id": "YWHAE", "group": "gene"}, {"id": "CHUK", "group": "gene"}, {"id": "HSP90AB1", "group": "gene"}, {"id": "CD6", "group": "important"}, {"id": "TYK2", "group": "important"}, {"id": "FSTL1", "group": "gene"}, {"id": "CBL", "group": "gene"}, {"id": "NR2F2", "group": "gene"}, {"id": "RUNX1T1", "group": "gene"}, {"id": "MED23", "group": "gene"}, {"id": "IFNAR1", "group": "gene"}, {"id": "LCOR", "group": "gene"}, {"id": "IL10", "group": "important"}, {"id": "NLRP3", "group": "important"}, {"id": "A2M", "group": "gene"}, {"id": "EIF4A1", "group": "gene"}, {"id": "HSPA4", "group": "gene"}, {"id": "ACTB", "group": "gene"}, {"id": "SNRPB", "group": "gene"}, {"id": "KIF1B", "group": "important"}, {"id": "HIST1H1B", "group": "gene"}, {"id": "EFNB3", "group": "gene"}, {"id": "ERP44", "group": "gene"}, {"id": "HSP90AA1", "group": "gene"}, {"id": "KIF2C", "group": "gene"}, {"id": "KCNJ10", "group": "important"}, {"id": "APOE", "group": "important"}, {"id": "RNF14", "group": "gene"}, {"id": "TM9SF1", "group": "gene"}, {"id": "TRIM28", "group": "gene"}, {"id": "RIPK2", "group": "gene"}, {"id": "IL1R1", "group": "gene"}, {"id": "IL1B", "group": "important"}, {"id": "PRDX2", "group": "gene"}, {"id": "GOPC", "group": "gene"}, {"id": "ARHGEF7", "group": "gene"}, {"id": "CASK", "group": "gene"}, {"id": "MYC", "group": "gene"}, {"id": "SNW1", "group": "gene"}, {"id": "KRT31", "group": "gene"}, {"id": "TSSC1", "group": "gene"}, {"id": "LRP2", "group": "gene"}, {"id": "VCAM1", "group": "important"}, {"id": "CRK", "group": "gene"}, {"id": "LGALS3BP", "group": "gene"}, {"id": "PCMT1", "group": "gene"}, {"id": "MLLT4", "group": "gene"}, {"id": "BRCA1", "group": "gene"}, {"id": "IL7R", "group": "important"}, {"id": "BAG1", "group": "gene"}, {"id": "RAB3B", "group": "gene"}, {"id": "MAPK1", "group": "gene"}, {"id": "CPSF7", "group": "gene"}, {"id": "STAT1", "group": "gene"}, {"id": "HLA-DPB1", "group": "important"}, {"id": "NCOR2", "group": "gene"}, {"id": "IL7", "group": "important"}, {"id": "TNFAIP3", "group": "important"}, {"id": "RNF31", "group": "gene"}, {"id": "IRF8", "group": "important"}, {"id": "PTPN11", "group": "gene"}, {"id": "CLEC16A", "group": "important"}, {"id": "BIRC3", "group": "gene"}, {"id": "DEFA1", "group": "gene"}, {"id": "POMC", "group": "important"}, {"id": "UBR4", "group": "gene"}, {"id": "SMARCA5", "group": "gene"}, {"id": "SEC24A", "group": "gene"}, {"id": "ADRB2", "group": "gene"}, {"id": "COPS2", "group": "gene"}, {"id": "TRAF3IP2", "group": "gene"}, {"id": "RBPJ", "group": "important"}, {"id": "RAB39B", "group": "gene"}, {"id": "NCOA6", "group": "gene"}, {"id": "IFNG", "group": "important"}, {"id": "SIAH1", "group": "gene"}, {"id": "CD58", "group": "important"}, {"id": "KRTAP10-8", 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>
</drugst-one>