Add TCGA Pancan pathways to query selector (#4610)

This adds pathways from the TCGA PanCan Pathways. File was provided by Walid
cBioPortal · May 11, 2023 · 8ac1d92 · 8ac1d92
1 parent c17bf77
commit 8ac1d92
Showing 1 changed file with 211 additions and 0 deletions.
diff --git a/src/shared/components/query/gene_lists.ts b/src/shared/components/query/gene_lists.ts
@@ -163,6 +163,217 @@ const gene_lists = [
             'PEG3',
         ],
     },
+    {
+        id: 'General: Cell Cycle - TCGA PanCan Pathways',
+        genes: [
+            'CDKN1A',
+            'CDKN1B',
+            'CDKN2A',
+            'CDKN2B',
+            'CDKN2C',
+            'CCND1',
+            'CCND2',
+            'CCND3',
+            'CCNE1',
+            'CDK2',
+            'CDK4',
+            'CDK6',
+            'RB1',
+            'E2F1',
+            'E2F3',
+        ],
+    },
+    {
+        id: 'General: HIPPO - TCGA PanCan Pathways',
+        genes: [
+            'STK4',
+            'STK3',
+            'SAV1',
+            'LATS1',
+            'LATS2',
+            'MOB1A',
+            'MOB1B',
+            'YAP1',
+            'TEAD2',
+            'PTPN14',
+            'NF2',
+            'WWC1',
+            'TAOK1',
+            'TAOK2',
+            'TAOK3',
+            'CRB1',
+            'CRB2',
+            'CRB3',
+            'FAT1',
+            'FAT2',
+            'FAT3',
+            'FAT4',
+            'DCHS1',
+            'DCHS2',
+            'CSNK1E',
+            'CSNK1D',
+        ],
+    },
+    {
+        id: 'General: MYC - TCGA PanCan Pathways',
+        genes: ['MAX', 'MGA', 'MLX', 'MNT', 'MXI1', 'MYC', 'MYCN'],
+    },
+    {
+        id: 'General: NOTCH - TCGA PanCan Pathways',
+        genes: [
+            'ARRDC1',
+            'CNTN6',
+            'CREBBP',
+            'EP300',
+            'HES1',
+            'HES2',
+            'HES3',
+            'HES4',
+            'HES5',
+            'HEY1',
+            'HEY2',
+            'HEYL',
+            'KAT2B',
+            'KDM5A',
+            'NOTCH1',
+            'NOTCH2',
+            'NOTCH3',
+            'NOTCH4',
+            'NOV',
+            'PSEN2',
+            'SPEN',
+            'FBXW7',
+            'THBS2',
+            'CUL1',
+            'NCOR1',
+            'NCOR2',
+            'HDAC1',
+            'JAG2',
+            'MAML3',
+            'DNER',
+        ],
+    },
+    {
+        id: 'General: NRF2 - TCGA PanCan Pathways',
+        genes: ['NFE2L2', 'KEAP1', 'CUL3'],
+    },
+    {
+        id: 'General: PI3K - TCGA PanCan Pathways',
+        genes: [
+            'AKT1',
+            'AKT2',
+            'AKT3',
+            'INPP4B',
+            'MLST8',
+            'MTOR',
+            'NPRL2',
+            'NPRL3',
+            'PIK3CA',
+            'PIK3CB',
+            'PIK3R1',
+            'PIK3R2',
+            'PIK3R3',
+            'PPP2R1A',
+            'PTEN',
+            'RHEB',
+            'RICTOR',
+            'RPTOR',
+            'RPS6KB1',
+            'STK11',
+            'TSC1',
+            'TSC2',
+        ],
+    },
+    {
+        id: 'General: TGF-Beta - TCGA PanCan Pathways',
+        genes: [
+            'TGFBR1',
+            'TGFBR2',
+            'ACVR2A',
+            'ACVR1B',
+            'SMAD2',
+            'SMAD3',
+            'SMAD4',
+        ],
+    },
+    {
+        id: 'General: RTK-RAS - TCGA PanCan Pathways',
+        genes: [
+            'ABL1',
+            'EGFR',
+            'ERBB2',
+            'ERBB3',
+            'ERBB4',
+            'PDGFRA',
+            'MET',
+            'FGFR1',
+            'FGFR2',
+            'FGFR3',
+            'FGFR4',
+            'FLT3',
+            'ALK',
+            'RET',
+            'ROS1',
+            'KIT',
+            'IGF1R',
+            'NTRK1',
+            'NTRK2',
+            'NTRK3',
+            'SOS1',
+            'GRB2',
+            'PTPN11',
+            'KRAS',
+            'HRAS',
+            'NRAS',
+            'RIT1',
+            'ARAF',
+            'BRAF',
+            'RAF1',
+            'RAC1',
+            'MAP2K1',
+            'MAP2K2',
+            'MAPK1',
+            'NF1',
+            'RASA1',
+            'CBL',
+            'ERRFI1',
+            'JAK2',
+        ],
+    },
+    {
+        id: 'General: TP53 - TCGA PanCan Pathways',
+        genes: ['TP53', 'MDM2', 'MDM4', 'ATM', 'CHEK2', 'RPS6KA3'],
+    },
+    {
+        id: 'General: WNT - TCGA PanCan Pathways',
+        genes: [
+            'SFRP1',
+            'SFRP2',
+            'SFRP4',
+            'SFRP5',
+            'SOST',
+            'TCF7L1',
+            'TLE1',
+            'TLE2',
+            'TLE3',
+            'TLE4',
+            'WIF1',
+            'ZNRF3',
+            'CTNNB1',
+            'AMER1',
+            'APC',
+            'AXIN1',
+            'AXIN2',
+            'DKK1',
+            'DKK2',
+            'DKK3',
+            'DKK4',
+            'GSK3B',
+            'RNF43',
+            'TCF7',
+            'TCF7L2',
+        ],
+    },
     {
         id: 'General: Cell Cycle Control',
         genes: [