genes.by.tft.pathway
genes.by.tft.pathway.RdA celltype pathway gene set from
x <- readLines("c3.tft.v7.5.1.symbols.gmt")
res <- strsplit(x, "\t")
names(res) <- vapply(res, function(y) y[1], character(1))
genes.by.tft.pathway <- lapply(res, "[", -c(1:2))
Usage
data(genes.by.tft.pathway)Examples
data(genes.by.tft.pathway)
str(genes.by.tft.pathway)
#> List of 1128
#> $ METHYLCYTOSINE_DIOXYGENASE_TET_UNIPROT_A0A023HHK9_UNREVIEWED_TARGET_GENES: chr [1:178] "PPP1R12A" "SPHK2" "HAGH" "RBL1" ...
#> $ IGLV5_37_TARGET_GENES : chr [1:640] "CRLF1" "PAX6" "BAIAP3" "DNAJC11" ...
#> $ BDP1_TARGET_GENES : chr [1:926] "LASP1" "RBM5" "DVL2" "FAM214B" ...
#> $ ZSCAN5C_TARGET_GENES : chr [1:150] "KDM1A" "CREBBP" "MED24" "CD4" ...
#> $ SMCHD1_TARGET_GENES : chr [1:73] "TSR3" "ALG1" "USH2A" "CTSA" ...
#> $ ZSCAN5B_TARGET_GENES : chr [1:85] "SYPL1" "ZNF839" "POLR3E" "NDC1" ...
#> $ AHRR_TARGET_GENES : chr [1:1388] "AK2" "HCCS" "SLC25A5" "RPAP3" ...
#> $ OVOL3_TARGET_GENES : chr [1:513] "SCYL3" "VPS50" "CDC27" "DVL2" ...
#> $ FOXE1_TARGET_GENES : chr [1:731] "SCYL3" "CDC27" "IFRD1" "CCDC124" ...
#> $ FOXN3_TARGET_GENES : chr [1:1523] "DPM1" "FUCA2" "ENPP4" "BAD" ...
#> $ KMT2D_TARGET_GENES : chr [1:801] "IFRD1" "RHBDF1" "MED24" "HIVEP2" ...
#> $ ZNF197_TARGET_GENES : chr [1:664] "LASP1" "RBM6" "ST7" "FBXL3" ...
#> $ PRMT5_TARGET_GENES : chr [1:102] "CFLAR" "POLA2" "PRKCH" "POLR2B" ...
#> $ TERT_TARGET_GENES : chr [1:129] "LASP1" "ZNF839" "C12orf4" "POLR3E" ...
#> $ ZNF213_TARGET_GENES : chr [1:597] "LASP1" "KDM1A" "PDK4" "REXO5" ...
#> $ XPO1_TARGET_GENES : chr [1:30] "TSPOAP1" "TBPL1" "FSTL3" "P2RY10" ...
#> $ SETD1A_TARGET_GENES : chr [1:1450] "LAS1L" "RAD52" "BAD" "POLDIP2" ...
#> $ ZBTB5_TARGET_GENES : chr [1:183] "FKBP4" "TTC19" "QPCTL" "C12orf4" ...
#> $ TBX3_TARGET_GENES : chr [1:354] "SARM1" "AK2" "DVL2" "ELAC2" ...
#> $ ZBTB7B_TARGET_GENES : chr [1:1956] "SCYL3" "STPG1" "RAD52" "BAD" ...
#> $ TP73_TARGET_GENES : chr [1:878] "DBNDD1" "SARM1" "RECQL" "UPF1" ...
#> $ FOXP2_TARGET_GENES : chr [1:1939] "GCLC" "LAP3" "SNX11" "POLDIP2" ...
#> $ NKX2_8_TARGET_GENES : chr [1:41] "DGAT2" "KDM5A" "MYL12B" "ITGB1BP1" ...
#> $ MAFG_TARGET_GENES : chr [1:1911] "STPG1" "CFLAR" "ABCC8" "IFRD1" ...
#> $ PER1_TARGET_GENES : chr [1:33] "RPL3" "RPL34" "MRPS30" "SFPQ" ...
#> $ ZBTB24_TARGET_GENES : chr [1:1604] "SCYL3" "C1orf112" "STPG1" "ENPP4" ...
#> $ HOXC11_TARGET_GENES : chr [1:54] "ERCC1" "TPR" "PTGS2" "ESR1" ...
#> $ HOXA2_TARGET_GENES : chr [1:1596] "SCYL3" "C1orf112" "GCLC" "CFTR" ...
#> $ TBX1_TARGET_GENES : chr [1:189] "RAD52" "ALS2" "POLA2" "WWTR1" ...
#> $ CBFA2T2_TARGET_GENES : chr [1:1704] "FUCA2" "STPG1" "SARM1" "POLDIP2" ...
#> $ LAMTOR5_TARGET_GENES : chr [1:5] "MTCO3P12" "MT-TC" "MT-TY" "MT-TT" ...
#> $ CREB3_TARGET_GENES : chr [1:407] "SCYL3" "SKAP2" "CCDC124" "NADK" ...
#> $ SOX15_TARGET_GENES : chr [1:5] "CELF2" "MTF2" "NOTCH1" "LNC-LBCS" ...
#> $ ZNF292_TARGET_GENES : chr [1:24] "DVL2" "TNFRSF12A" "QSER1" "CROCCP3" ...
#> $ SYNCRIP_TARGET_GENES : chr [1:21] "NNAT" "ESR1" "GDAP1L1" "IAH1" ...
#> $ CREBL2_TARGET_GENES : chr [1:11] "SGK2" "SCNN1A" "RASGRF2" "MTFR1L" ...
#> $ FOXD2_TARGET_GENES : chr [1:1266] "RAD52" "ARF5" "RBM6" "DVL2" ...
#> $ LMX1B_TARGET_GENES : chr [1:30] "SPRTN" "AGPS" "SPDL1" "SRI" ...
#> $ ZNF354A_TARGET_GENES : chr [1:31] "RAI14" "CNN2" "GGA2" "S100PBP" ...
#> $ ZNF623_TARGET_GENES : chr [1:95] "CRY1" "SFSWAP" "ISOC2" "NGEF" ...
#> $ ZBED4_TARGET_GENES : chr [1:173] "VPS50" "NDUFAB1" "CALCOCO1" "NOP16" ...
#> $ PHF2_TARGET_GENES : chr [1:1498] "LASP1" "CFLAR" "RBM6" "DVL2" ...
#> $ ZC3H11A_TARGET_GENES : chr [1:595] "DHX33" "SPATA20" "AGK" "MARK4" ...
#> $ NR1I2_TARGET_GENES : chr [1:344] "AK2" "AP2B1" "PLAUR" "MFAP3" ...
#> $ PSIP1_TARGET_GENES : chr [1:64] "GAS7" "FYN" "GDI2" "SLC6A15" ...
#> $ FOXH1_TARGET_GENES : chr [1:933] "HECW1" "LASP1" "MTMR7" "RBM6" ...
#> $ GCM2_TARGET_GENES : chr [1:1992] "DPM1" "C1orf112" "STPG1" "HECW1" ...
#> $ WDHD1_TARGET_GENES : chr [1:203] "TSR3" "CDK11A" "PHF7" "SYT7" ...
#> $ KLF7_TARGET_GENES : chr [1:936] "RAD52" "RECQL" "RPS20" "STARD3NL" ...
#> $ TOX4_TARGET_GENES : chr [1:195] "RNF10" "SNX1" "ARID4A" "ZZZ3" ...
#> $ NKX2_2_TARGET_GENES : chr [1:1343] "DPM1" "C1orf112" "NDUFAF7" "VPS50" ...
#> $ ZNF202_TARGET_GENES : chr [1:82] "BAIAP2L1" "SEC62" "HHATL" "IL20RA" ...
#> $ PGM3_TARGET_GENES : chr [1:268] "AGK" "RPS20" "BAZ1B" "CLCN6" ...
#> $ SVIL_TARGET_GENES : chr [1:22] "TTI2" "IL2RA" "LRSAM1" "ELAVL4" ...
#> $ WIZ_TARGET_GENES : chr [1:20] "PRKCH" "ROCK1" "PPP2R5C" "GTPBP10" ...
#> $ SNAI1_TARGET_GENES : chr [1:513] "STPG1" "NIPAL3" "ITGA3" "RPS20" ...
#> $ CBX7_TARGET_GENES : chr [1:968] "M6PR" "CYP26B1" "CDC27" "COPZ2" ...
#> $ PTTG1_TARGET_GENES : chr [1:80] "GTF2IRD1" "UFL1" "AP2S1" "BCAT1" ...
#> $ HAND1_TARGET_GENES : chr [1:486] "FUCA2" "HSPB6" "GCFC2" "AGK" ...
#> $ EGFR_TARGET_GENES : chr [1:8] "DVL2" "ACTB" "C12orf57" "RHOB" ...
#> $ F10_TARGET_GENES : chr [1:284] "VPS41" "AASS" "MAP4K3" "ATP2C1" ...
#> $ HBZ_TARGET_GENES : chr [1:784] "SCYL3" "C1orf112" "STPG1" "ANKIB1" ...
#> $ NPM1_TARGET_GENES : chr [1:361] "SCYL3" "M6PR" "POLDIP2" "KDM1A" ...
#> $ GLI1_TARGET_GENES : chr [1:619] "CROT" "DDX11" "CYP3A43" "LETMD1" ...
#> $ SNRNP70_TARGET_GENES : chr [1:1013] "NFYA" "TFPI" "NDUFAB1" "ACSM3" ...
#> $ HMGB1_TARGET_GENES : chr [1:1535] "ICA1" "CFLAR" "SLC7A2" "PLXND1" ...
#> $ HOXB7_TARGET_GENES : chr [1:27] "ING3" "PLD1" "SH2D3C" "DCAF11" ...
#> $ HOXC6_TARGET_GENES : chr [1:1212] "CYP51A1" "RAD52" "KDM1A" "PDK4" ...
#> $ ZSCAN5DP_TARGET_GENES : chr [1:1381] "POLDIP2" "PLXND1" "VPS50" "DVL2" ...
#> $ GLI3_TARGET_GENES : chr [1:752] "RAD52" "REX1BD" "RPS20" "UQCRC1" ...
#> $ GLI4_TARGET_GENES : chr [1:857] "LAS1L" "RAD52" "ARF5" "CAMKK1" ...
#> $ MYBL1_TARGET_GENES : chr [1:204] "CFTR" "REXO5" "MYCBP2" "ST7L" ...
#> $ RARB_TARGET_GENES : chr [1:7] "MT-TF" "MT-TG" "MT-TR" "MT-RNR1" ...
#> $ THRA_TARGET_GENES : chr [1:110] "IBTK" "GRAMD1B" "RB1CC1" "UNKL" ...
#> $ MTHFD1_TARGET_GENES : chr [1:12] "ZCCHC8" "MTHFD1" "PGK1" "KCTD20" ...
#> $ SKIL_TARGET_GENES : chr [1:1961] "DPM1" "STPG1" "CYP51A1" "MAD1L1" ...
#> $ ZNF250_TARGET_GENES : chr [1:511] "MAD1L1" "DNAJC11" "BAZ1B" "METTL13" ...
#> $ RAG1_TARGET_GENES : chr [1:1054] "C1orf112" "CYP51A1" "RAD52" "CD99" ...
#> $ YBX3_TARGET_GENES : chr [1:55] "VPS50" "TSR3" "ALG1" "GATB" ...
#> $ ZNF708_TARGET_GENES : chr [1:97] "PSMC4" "USH2A" "PPP1R12A" "DGKA" ...
#> $ ZNF16_TARGET_GENES : chr [1:77] "GTF2IRD1" "MARK4" "GIPR" "ERCC1" ...
#> $ ZNF19_TARGET_GENES : chr [1:13] "MTREX" "DHX29" "GLG1" "CASC3" ...
#> $ ZNF20_TARGET_GENES : chr [1:6] "ITPKC" "COQ8B" "SKP2" "GINS4" ...
#> $ ZNF22_TARGET_GENES : chr [1:1195] "E2F2" "SPAG9" "IYD" "ZNF207" ...
#> $ ZNF23_TARGET_GENES : chr [1:16] "PNPLA6" "DNM2" "SYT5" "ASS1" ...
#> $ ZNF26_TARGET_GENES : chr [1:30] "E2F2" "SNX16" "ERICH1" "BBC3" ...
#> $ ZNF37A_TARGET_GENES : chr [1:159] "FKBP4" "ZFP64" "SAMD4A" "POU2F2" ...
#> $ ZNF30_TARGET_GENES : chr [1:1549] "LASP1" "ICA1" "CASP10" "AK2" ...
#> $ HMGA1_TARGET_GENES : chr [1:1229] "CFH" "CFTR" "CD38" "ABCB5" ...
#> $ ZNF7_TARGET_GENES : chr [1:908] "AK2" "MEOX1" "GCFC2" "GDE1" ...
#> $ ZNF8_TARGET_GENES : chr [1:1052] "GCLC" "LAS1L" "POLDIP2" "KDM1A" ...
#> $ HOXB4_TARGET_GENES : chr [1:1184] "STPG1" "M6PR" "SARM1" "KDM1A" ...
#> $ HOXB6_TARGET_GENES : chr [1:646] "RAD52" "DVL2" "ZNF195" "MAP3K14" ...
#> $ PTPRA_TARGET_GENES : chr [1:130] "GCFC2" "ZFX" "MAPK8IP2" "PRKCH" ...
#> $ ADCYAP1_TARGET_GENES : chr [1:11] "TMEFF2" "NKD2" "GLYCTK" "EHBP1L1" ...
#> $ ATF6_TARGET_GENES : chr [1:1076] "CFTR" "ANKIB1" "KRIT1" "RAD52" ...
#> $ TFEB_TARGET_GENES : chr [1:1402] "ALS2" "SLC25A13" "DVL2" "SKAP2" ...
#> $ NR1D1_TARGET_GENES : chr [1:121] "HEATR5B" "APBA3" "FAM13B" "NSMAF" ...
#> $ ZNF10_TARGET_GENES : chr [1:827] "LASP1" "CIAPIN1" "OSBPL7" "MGST1" ...
#> [list output truncated]