From 9c05a9f7672a8b2ec17c963476c0d57d770f47cd Mon Sep 17 00:00:00 2001
From: AndiMajore <andi.majore@googlemail.com>
Date: Fri, 1 Jul 2022 16:42:58 +0200
Subject: [PATCH] added new datasets to config
---
src/app/config.ts | 21 ++++++++++++++-------
src/index.html | 2 +-
2 files changed, 15 insertions(+), 8 deletions(-)
diff --git a/src/app/config.ts b/src/app/config.ts
index 0045a293..3479c048 100644
--- a/src/app/config.ts
+++ b/src/app/config.ts
@@ -24,8 +24,11 @@ export interface EdgeGroup {
}
export type Identifier = 'symbol'|'uniprot'|'ensg';
-export type InteractionDrugProteinDB = 'DrugBank'|'Chembl'|'DGIdb';
-export type InteractionProteinProteinDB = 'STRING'|'BioGRID'|'APID';
+export type InteractionDrugProteinDB = 'DrugBank'|'Chembl'|'DGIdb' | 'NeDRex';
+export type InteractionProteinProteinDB = 'STRING'|'BioGRID'|'APID' | 'NeDRex';
+export type IndicationDrugDisorderDB = 'DrugBank' | 'NeDRex';
+export type AssociatedProteinDisorderDB = 'NeDRex' | 'DisGeNET';
+
// TODO: should this be external or integrated in the backend?
export type InteractionDatabase = 'omnipath';
@@ -35,8 +38,8 @@ export interface IConfig {
legendUrl: string;
legendClass: string;
legendPos: 'left' | 'right';
- taskTargetName: string,
- taskDrugName: string,
+ taskTargetName: string;
+ taskDrugName: string;
showSidebar: false | 'left' | 'right';
showOverview: boolean;
showQuery: boolean;
@@ -65,6 +68,8 @@ export interface IConfig {
edgeGroups: { [key: string]: EdgeGroup };
interactionDrugProtein: InteractionDrugProteinDB;
interactionProteinProtein: InteractionProteinProteinDB;
+ indicationDrugDisorder: IndicationDrugDisorderDB;
+ associatedProteinDisorder: AssociatedProteinDisorderDB;
autofillEdges: boolean;
interactions?: InteractionDatabase;
physicsOn?: boolean;
@@ -108,8 +113,10 @@ export const defaultConfig: IConfig = {
showNetworkMenuButtonAnimation: true,
networkMenuButtonAnimationLabel: 'Animation',
identifier: 'symbol',
- interactionDrugProtein: 'DrugBank',
- interactionProteinProtein: 'STRING',
+ interactionDrugProtein: 'NeDRex',
+ interactionProteinProtein: 'NeDRex',
+ associatedProteinDisorder: 'NeDRex',
+ indicationDrugDisorder: 'NeDRex',
nodeShadow: true,
edgeShadow: true,
autofillEdges: true,
@@ -226,5 +233,5 @@ export const defaultConfig: IConfig = {
color: 'black',
dashes: false
}
- },
+ }
};
diff --git a/src/index.html b/src/index.html
index 903991b5..3614e49c 100644
--- a/src/index.html
+++ b/src/index.html
@@ -49,7 +49,7 @@
<drugst-one id="netexp1"
pluginId="2"
- config='{"physicsOn":true, "showLeftSidebar": true, "showSimpleAnalysis":true, "nodeGroups":{"patient":{"type":"patient","color":"black","font":{"color":"#ffffff"},"groupName":"Patient","shape":"image","image":"https://static.thenounproject.com/png/22780-200.png"},"condition":{"type":"condition","color":"black","font":{"color":"black"},"groupName":"Condition","shape":"text"},"important":{"type":"gene","color":"#ff881f","font":{"color":"#000000"},"groupName":"Important Gene","shape":"star"},"gene":{"type":"gene","color":"#4da300","font":{"color":"#ffffff"},"groupName":"Gene","shape":"circle"},"foundDrug":{"type":"drug","color":{"border":"#F12590","background":"#F12590"},"font":{"color":"#f0f0f0"},"groupName":"Drug","shape":"diamond"}},"edgeGroups":{"genotype":{"color":"black","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]}},"identifier":"symbol","title":"Breast cancer example network","nodeShadow":true,"edgeShadow":false,"autofillEdges":false,"showLegend":true}'
+ config='{"interactionDrugProtein":"NeDRex", "physicsOn":true, "showLeftSidebar": true, "showSimpleAnalysis":true, "nodeGroups":{"patient":{"type":"patient","color":"black","font":{"color":"#ffffff"},"groupName":"Patient","shape":"image","image":"https://static.thenounproject.com/png/22780-200.png"},"condition":{"type":"condition","color":"black","font":{"color":"black"},"groupName":"Condition","shape":"text"},"important":{"type":"gene","color":"#ff881f","font":{"color":"#000000"},"groupName":"Important Gene","shape":"star"},"gene":{"type":"gene","color":"#4da300","font":{"color":"#ffffff"},"groupName":"Gene","shape":"circle"},"foundDrug":{"type":"drug","color":{"border":"#F12590","background":"#F12590"},"font":{"color":"#f0f0f0"},"groupName":"Drug","shape":"diamond"}},"edgeGroups":{"genotype":{"color":"black","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]}},"identifier":"symbol","title":"Breast cancer example network","nodeShadow":true,"edgeShadow":false,"autofillEdges":false,"showLegend":true}'
network='{"nodes":[{"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":"BRCA1","to":"BRCA2","group":"ggi"},{"from":"ATM","to":"BARD1","group":"ggi"},{"from":"BRCA1","to":"CHEK2","group":"ggi"},{"from":"RAD51C","to":"RAD51D","group":"ggi"},{"from":"STK11","to":"TP53","group":"ggi"},{"from":"TP53","to":"PALB2","group":"ggi"},{"from":"TP53","to":"RAD51D","group":"ggi"},{"from":"TP53","to":"NF1","group":"ggi"},{"from":"TP53","to":"BRCA1","group":"ggi"},{"from":"TP53","to":"BRCA2","group":"ggi"},{"from":"PTEN","to":"BRCA1","group":"ggi"},{"from":"PTEN","to":"BRCA2","group":"ggi"},{"from":"TP53","to":"PTEN","group":"ggi"},{"from":"ATM","to":"PTEN","group":"ggi"},{"from":"CDH1","to":"RAD51D","group":"ggi"},{"from":"CDH1","to":"PALB2","group":"ggi"},{"from":"NBN","to":"BRIP1","group":"ggi"},{"from":"BRIP1","to":"PTEN","group":"ggi"},{"from":"patient-1","to":"BRCA1","group":"genotype"},{"from":"patient-1","to":"TP53","group":"genotype"},{"from":"patient-1","to":"BRCA2","group":"genotype"},{"from":"patient-1","to":"PTEN","group":"genotype"},{"from":"patient-2","to":"TP53","group":"genotype"},{"from":"patient-2","to":"NF1","group":"genotype"},{"from":"patient-2","to":"BARD1","group":"genotype"},{"from":"patient-3","to":"TP53","group":"genotype"},{"from":"patient-3","to":"PTEN","group":"genotype"},{"from":"patient-3","to":"NBN","group":"genotype"},{"from":"patient-1","to":"subtype-1","group":"has-condition"},{"from":"patient-2","to":"subtype-1","group":"has-condition"},{"from":"patient-3","to":"subtype-2","group":"has-condition"}]}'>
</drugst-one>
</div>
--
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