genes.by.regulatory.pathway
genes.by.regulatory.pathway.RdA celltype pathway gene set from
x <- readLines("c3.all.v7.5.1.symbols.gmt")
res <- strsplit(x, "\t")
names(res) <- vapply(res, function(y) y[1], character(1))
genes.by.regulatory.pathway <- lapply(res, "[", -c(1:2))
Usage
data(genes.by.regulatory.pathway)Examples
data(genes.by.regulatory.pathway)
str(genes.by.regulatory.pathway)
#> List of 3731
#> $ MIR153_5P : chr [1:1070] "MEST" "NUDT4" "AGFG1" "IPO5" ...
#> $ MIR8485 : chr [1:1034] "MBOAT2" "IPO5" "SPATA17" "CREB5" ...
#> $ MIR3662 : chr [1:966] "VSIG1" "NUDT4" "AGFG1" "MBTPS2" ...
#> $ MIR607 : chr [1:981] "ESRRG" "PIAS2" "AGFG1" "MBTPS2" ...
#> $ MIR616_5P : chr [1:961] "MPV17L" "AP4S1" "BAG5" "MDM4" ...
#> $ MIR371B_5P : chr [1:959] "MPV17L" "AP4S1" "BAG5" "MDM4" ...
#> $ MIR373_5P : chr [1:956] "MPV17L" "AP4S1" "BAG5" "MDM4" ...
#> $ MIR6867_5P : chr [1:884] "PIAS2" "SLITRK3" "EDA2R" "SYT17" ...
#> $ MIR12136 : chr [1:1003] "CALU" "MBTPS2" "MDM4" "GUCY1B1" ...
#> $ MIR548AJ_3P_MIR548X_3P : chr [1:913] "TFPI2" "MBOAT2" "BAG5" "ZNF568" ...
#> $ MIR3646 : chr [1:865] "CD84" "NWD1" "CREB5" "TMEM170A" ...
#> $ MIR1277_5P : chr [1:901] "CXXC5" "ZCRB1" "ITPRID2" "AFF4" ...
#> $ MIR651_3P : chr [1:814] "ESRRG" "IPO5" "MDM4" "CREB5" ...
#> $ MIR335_3P : chr [1:883] "NUDT15" "AGFG1" "ITPRID2" "CASTOR2" ...
#> $ MIR520D_5P : chr [1:939] "PNOC" "CALU" "NUDT4" "AGFG1" ...
#> $ MIR524_5P : chr [1:941] "PNOC" "CALU" "NUDT4" "AGFG1" ...
#> $ MIR548AE_3P_MIR548AQ_3P : chr [1:786] "TFPI2" "BAG5" "TMEM170A" "HPS1" ...
#> $ MIR548AH_3P_MIR548AM_3P : chr [1:783] "TFPI2" "BAG5" "TMEM170A" "HPS1" ...
#> $ MIR548J_3P : chr [1:783] "TFPI2" "BAG5" "TMEM170A" "HPS1" ...
#> $ MIR3658 : chr [1:819] "KDM5D" "AGFG1" "MBOAT2" "GUCY1B1" ...
#> $ MIR570_3P : chr [1:770] "SIX4" "TMEM170A" "IFNA17" "PAK3" ...
#> $ MIR5688 : chr [1:788] "KDM5D" "AP4S1" "CALU" "AGFG1" ...
#> $ MIR4795_3P : chr [1:729] "CD84" "ESRRG" "PIAS2" "NWD1" ...
#> $ MIR548E_5P : chr [1:745] "MINK1" "MDM4" "CREB5" "SIX4" ...
#> $ MIR5696 : chr [1:704] "HFE" "AGFG1" "IPO5" "MBTPS2" ...
#> $ MIR340_5P : chr [1:791] "EVI2B" "BTBD1" "GUCY1B1" "PRDM16" ...
#> $ LET_7A_3P : chr [1:723] "NUDT4" "PRDM16" "ARNTL" "NR2F2" ...
#> $ MIR4262 : chr [1:769] "MBOAT2" "MBTPS2" "ATM" "PCDHA2" ...
#> $ MIR30B_5P_MIR30C_5P : chr [1:785] "CALU" "KXD1" "MBTPS2" "LIMCH1" ...
#> $ MIR30D_5P : chr [1:781] "CALU" "KXD1" "MBTPS2" "LIMCH1" ...
#> $ MIR30E_5P : chr [1:781] "CALU" "KXD1" "MBTPS2" "LIMCH1" ...
#> $ MIR98_3P : chr [1:725] "NUDT4" "PRDM16" "ARNTL" "NR2F2" ...
#> $ MIR30A_5P : chr [1:780] "CALU" "KXD1" "MBTPS2" "LIMCH1" ...
#> $ LET_7F_1_3P : chr [1:721] "NUDT4" "PRDM16" "ARNTL" "NR2F2" ...
#> $ LET_7B_3P : chr [1:721] "NUDT4" "PRDM16" "ARNTL" "NR2F2" ...
#> $ MIR495_3P : chr [1:706] "KDM5D" "AP4S1" "CALU" "AGFG1" ...
#> $ MIR5582_3P : chr [1:674] "AP4S1" "EVI2B" "AGFG1" "GUCY1B1" ...
#> $ MIR4729 : chr [1:717] "IPO5" "MBTPS2" "GUCY1B1" "ARNTL" ...
#> $ MIR4659A_3P_MIR4659B_3P : chr [1:680] "MBTPS2" "SLC4A10" "NHSL2" "ZNF148" ...
#> $ MIR7_1_3P : chr [1:654] "AGFG1" "ZCRB1" "AFF4" "RWDD3" ...
#> $ MIR7_2_3P : chr [1:652] "AGFG1" "ZCRB1" "AFF4" "RWDD3" ...
#> $ MIR3671 : chr [1:640] "MDM4" "CREB5" "ZCRB1" "AFF4" ...
#> $ MIR4698 : chr [1:643] "VSIG1" "MBTPS2" "CREB5" "AMZ2" ...
#> $ MIR95_5P : chr [1:672] "PIAS2" "MBTPS2" "OCIAD1" "AFF4" ...
#> $ MIR1468_3P : chr [1:644] "ESRRG" "PIAS2" "AGFG1" "PRDM16" ...
#> $ MIR548N : chr [1:617] "AGFG1" "MBOAT2" "GUCY1B1" "CREB5" ...
#> $ MIR4328 : chr [1:579] "CALU" "MBOAT2" "NR2F2" "ADAM22" ...
#> $ MIR548D_3P : chr [1:611] "TFPI2" "MBOAT2" "BAG5" "MDM4" ...
#> $ MIR548H_3P_MIR548Z : chr [1:611] "TFPI2" "MBOAT2" "BAG5" "MDM4" ...
#> $ MIR302C_5P : chr [1:579] "PRDM16" "ITPRID2" "SIX4" "BTBD3" ...
#> $ MIR548BB_3P : chr [1:605] "TFPI2" "MBOAT2" "BAG5" "MDM4" ...
#> $ MIR548AC : chr [1:610] "TFPI2" "MBOAT2" "BAG5" "MDM4" ...
#> $ MIR548P : chr [1:600] "PXK" "AGFG1" "SYBU" "ZNF148" ...
#> $ MIR23A_3P_MIR23B_3P : chr [1:592] "IPO5" "SIX4" "TMEM170A" "MCM4" ...
#> $ MIR23C : chr [1:594] "IPO5" "SIX4" "TMEM170A" "MCM4" ...
#> $ MIR6809_3P : chr [1:558] "CD84" "ESRRG" "MBOAT2" "BTBD1" ...
#> $ MIR559 : chr [1:557] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR3121_3P : chr [1:646] "AGFG1" "MBOAT2" "BTBD1" "MBTPS2" ...
#> $ MIR1297 : chr [1:626] "PIAS2" "ATM" "MTTP" "ARPC3" ...
#> $ MIR548AR_3P : chr [1:574] "CREB5" "ZSCAN30" "ITPRID2" "ADAM22" ...
#> $ MIR10527_5P : chr [1:592] "PXK" "SYBU" "M6PR" "EVL" ...
#> $ MIR3529_3P : chr [1:547] "CXXC5" "NUDT4" "MTTP" "EHBP1" ...
#> $ MIR4728_5P : chr [1:570] "MINK1" "MBOAT2" "MDM4" "ZSCAN30" ...
#> $ MIR19A_3P : chr [1:649] "ESR1" "SOX6" "SMARCA2" "MDM4" ...
#> $ MIR548AW : chr [1:601] "BCL6" "NUDT15" "PRDM16" "SIX4" ...
#> $ MIR106B_5P : chr [1:680] "PXK" "MINK1" "AGFG1" "CREB5" ...
#> $ MIR19B_3P : chr [1:651] "ESR1" "SOX6" "SMARCA2" "MDM4" ...
#> $ MIR548AA_MIR548AP_3P_MIR548T_3P : chr [1:548] "RFX5" "ATM" "ITPRID2" "AFF4" ...
#> $ MIR20A_5P : chr [1:671] "PXK" "MINK1" "AGFG1" "CREB5" ...
#> $ MIR9983_3P : chr [1:466] "MDM4" "CREB5" "PAK3" "AGO3" ...
#> $ MIR506_3P : chr [1:748] "MBOAT2" "ITPRID2" "SIX4" "AFF4" ...
#> $ MIR579_3P : chr [1:509] "PIAS2" "AGFG1" "MBOAT2" "MBTPS2" ...
#> $ MIR124_3P : chr [1:746] "MBOAT2" "ITPRID2" "SIX4" "AFF4" ...
#> $ MIR3680_3P : chr [1:536] "TFPI2" "NWD1" "PCDHA2" "ARNTL" ...
#> $ MIR664B_3P : chr [1:503] "PIAS2" "AGFG1" "MBOAT2" "MBTPS2" ...
#> $ MIR186_5P : chr [1:567] "MBTPS2" "CHURC1" "BTBD3" "PAK3" ...
#> $ MIR181A_5P_MIR181B_5P : chr [1:600] "MBOAT2" "MBTPS2" "ATM" "PCDHA2" ...
#> $ MIR181D_5P : chr [1:599] "MBOAT2" "MBTPS2" "ATM" "PCDHA2" ...
#> $ MIR181C_5P : chr [1:601] "MBOAT2" "MBTPS2" "ATM" "PCDHA2" ...
#> $ MIR4719 : chr [1:526] "NUDT4" "AGFG1" "SLC30A6" "SYT17" ...
#> $ MIR4753_3P : chr [1:559] "BTBD1" "PRDM16" "PCDHA2" "CHCHD3" ...
#> $ MIR4666A_3P : chr [1:547] "ESRRG" "NUDT4" "ARNTL" "SLC38A2" ...
#> $ MIR126_5P : chr [1:465] "CD84" "ESRRG" "PIAS2" "NWD1" ...
#> $ MIR548Y : chr [1:505] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR4668_5P : chr [1:473] "CREB5" "ZSCAN30" "CASTOR2" "C12orf66" ...
#> $ MIR551B_5P : chr [1:507] "ATM" "OCIAD1" "AFF4" "TMEM170A" ...
#> $ MIR548BB_5P : chr [1:499] "GUCY1B1" "PARD3" "ADAM22" "SIX4" ...
#> $ MIR548AR_5P : chr [1:502] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ LET_7C_3P : chr [1:577] "NUDT4" "CREB5" "NR2F2" "AFF4" ...
#> $ MIR548AD_5P_MIR548AE_5P_MIR548AY_5P_MIR548B_5P_MIR548D_5P : chr [1:497] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR548AK_MIR548AM_5P_MIR548C_5P_MIR548H_5P_MIR548O_5P_MIR548AU_5P : chr [1:496] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR548O_5P_MIR548W : chr [1:496] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR144_3P : chr [1:495] "PRDM16" "NR2F2" "CASTOR2" "SSX2IP" ...
#> $ MIR548AB : chr [1:496] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR548AS_5P : chr [1:494] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR1250_3P : chr [1:504] "CHURC1" "SIX4" "SLC38A2" "ELAPOR2" ...
#> $ MIR548A_5P : chr [1:496] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR548AQ_5P : chr [1:498] "GUCY1B1" "ADAM22" "SIX4" "TCF12" ...
#> $ MIR513A_3P_MIR513C_3P : chr [1:449] "AGFG1" "MBOAT2" "MDM4" "MGST1" ...
#> [list output truncated]