# HG changeset patch # User bgruening # Date 1661329660 0 # Node ID 785ed86215037fee2f89fb2387449c030dd575d5 planemo upload commit 13e28726551f8751007f28a3c6cd5d00ba278056 diff -r 000000000000 -r 785ed8621503 netboxr_r.R --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/netboxr_r.R Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,117 @@ +# Set up R error handling to go to stderr +options(show.error.messages = FALSE, + error = function() { + cat(geterrmessage(), file = stderr()) + q("no", 1, FALSE)}) +# Avoid crashing Galaxy with an UTF8 error on German LC settings +loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8") +# Import required libraries and data +suppressPackageStartupMessages({ + library(netboxr) + library(igraph) + library(RColorBrewer) +}) + +data(netbox2010) +args <- commandArgs(TRUE) +# Vars +gene_list <- scan(args[2], what = character(), sep = "\n") +cutoff <- args[4] +community <- args[6] +global_model <- args[8] +global_iterations <- args[10] +global_number <- args[12] +local_model <- args[14] +local_iterations <- args[16] + +network_plot <- args[18] +plot_width <- args[20] +output_sif <- args[22] +neighbor_list <- args[24] +modmem <- args[26] +nt <- args[28] + +sink("metadata.txt") +sink(stdout(), type = "message") +# Network analysis as described in netboxr vignette +sif_network <- netbox2010$network +graph_reduced <- networkSimplify(sif_network, directed = FALSE) +threshold <- cutoff +results <- print(geneConnector(geneList = gene_list, networkGraph = graph_reduced, + directed = FALSE, pValueAdj = "BH", pValueCutoff = threshold, + communityMethod = community, keepIsolatedNodes = FALSE)) + +# Check the p-value of the selected linker +linker_df <- results$neighborData +linker_df[linker_df$pValueFDR < threshold, ] +graph_layout <- layout_with_fr(results$netboxGraph) + +# Global Network Null Model +if (global_model) { + global_test <- globalNullModel(netboxGraph = results$netboxGraph, networkGraph = graph_reduced, + iterations = global_iterations, numOfGenes = global_number) + global_test +} + +# Local Network Null Model +if (local_model) { + local_test <- localNullModel(netboxGraph = results$netboxGraph, iterations = local_iterations) + local_test +} + +## Output +# Plot the edge annotated graph +if (network_plot) { + + edges <- results$netboxOutput + interaction_type <- unique(edges[, 2]) + interaction_type_color <- brewer.pal(length(interaction_type), name = "Spectral") + edge_colors <- data.frame(interaction_type, interaction_type_color, stringsAsFactors = FALSE) + colnames(edge_colors) <- c("INTERACTION_TYPE", "COLOR") + netbox_graph_annotated <- annotateGraph(netboxResults = results, edgeColors = + edge_colors, directed = FALSE, linker = TRUE) + pdf("network_plot.pdf", width = plot_width) + plot(results$netboxCommunity, netbox_graph_annotated, layout = graph_layout, + vertex.size = 10, vertex.shape = V(netbox_graph_annotated)$shape, edge.color + = E(netbox_graph_annotated)$interactionColor, edge.width = 3) + + # Add interaction type annotations + legend(x = -1.8, y = -1, legend = interaction_type, col = + interaction_type_color, lty = 1, lwd = 2, bty = "n", cex = 1) + dev.off() +} + +# Local Network Null Model +if (local_model) { + pdf("localModel_histogram.pdf") + h <- hist(local_test$randomModularityScore, breaks = 35, plot = FALSE) + h$density <- h$counts / sum(h$counts) + plot(h, freq = FALSE, ylim = c(0, 0.1), xlim = c(0.1, 0.6), col = "lightblue") + abline(v = local_test$modularityScoreObs, col = "red") + dev.off() +} + +# NetBox algorithm output in SIF format. +if (output_sif) { + write.table(results$netboxOutput, file = "network.sif", sep = "\t", quote = FALSE, + col.names = FALSE, row.names = FALSE) +} + +# Save neighbor data +if (neighbor_list) { + write.table(results$neighborData, file = "neighbor_data.txt", sep = "\t", + quote = FALSE, col.names = TRUE, row.names = FALSE) +} + +#Save identified pathway module numbers +if (modmem) { + write.table(results$moduleMembership, file = "community.membership.txt", sep = "\t", + quote = FALSE, col.names = FALSE, row.names = FALSE) +} + +# Save file that indicates whether the node is a 'linker' or 'candidate' +if (nt) { + write.table(results$nodeType, file = "nodeType.txt", sep = "\t", quote = FALSE, col.names = FALSE, + row.names = FALSE) +} +sink(NULL) diff -r 000000000000 -r 785ed8621503 netboxr_xml.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/netboxr_xml.xml Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,151 @@ + + enables automated discovery of biological process modules by network analysis. + + bioconductor-netboxr + + + + + + + + + + + + + + + + + + + + + + + + + + output_pdf is True + + + localModel is True + + + outputSIF is True + + + output_neighbor is True + + + moduleMembership is True + + + nodeType is True + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + 10.1371/journal.pone.0234669 + + diff -r 000000000000 -r 785ed8621503 test-data/community.membership.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/community.membership.txt Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,72 @@ +CBL 1 +ADAM12 1 +PIK3R1 1 +PTPN11 1 +KIT 1 +MPDZ 1 +KDR 1 +ERBB2 1 +SPRY2 1 +FRS2 1 +TEK 1 +GAB1 1 +PDGFRA 1 +IFNG 1 +VLDLR 1 +DOCK1 1 +EGFR 1 +JAK2 1 +CRK 1 +PIK3C2B 1 +PTPRB 1 +PTEN 1 +SH3GL2 1 +FGF23 1 +MAPK11 1 +PIK3CA 1 +HLA-DRA 1 +AVIL 1 +AGAP2 1 +TBP 2 +RB1 2 +TAF1 2 +CDK6 2 +CDKN2A 2 +TP53 2 +HSPA1A 2 +RBBP5 2 +SNAPC3 2 +MDM4 2 +MDM2 2 +KLF6 2 +CDKN2C 2 +CDK4 2 +PIM1 2 +BNC2 2 +EPHA3 2 +CCND2 2 +CDKN2B 2 +IFNW1 3 +IFNA2 3 +IFNB1 3 +IFNAR1 3 +IFNA1 3 +KCNA5 4 +PTPRD 4 +PTPRE 4 +CNTN2 5 +NCAM1 5 +NUP50 6 +THOC4 6 +NUP107 6 +SNRPE 6 +DCTN2 7 +TUBGCP2 7 +FGFR1OP 7 +TUBGCP6 7 +A2M 8 +LYZ 8 +PPARA 9 +STAC3 9 +CCT2 10 +CCT6A 10 diff -r 000000000000 -r 785ed8621503 test-data/localModel_histogram.pdf Binary file test-data/localModel_histogram.pdf has changed diff -r 000000000000 -r 785ed8621503 test-data/neighbor_data.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/neighbor_data.txt Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,893 @@ +idx name localDegree globalDegree pValueRaw oddsRatio pValueFDR +1712 CRK 11 81 2.39208791593171e-05 1.70873218314362 0.0186673141177578 +4546 IFNAR1 6 23 4.18549643895914e-05 2.51872572932126 0.0186673141177578 +20 CBL 14 140 6.50546994954036e-05 1.3610568890526 0.0193429306499667 +500 GAB1 8 57 0.000248319689968565 1.75112196905105 0.0488782736525554 +414 CDK6 5 21 0.000300851540057881 2.40690610751877 0.0488782736525554 +84 PTPN11 14 163 0.000328777625465619 1.19140466680817 0.0488782736525554 +883 NRCAM 3 6 0.000479055427005265 3.49957222828438 0.0610453486983852 +1589 EGF 8 67 0.00075960357041191 1.56599925702267 0.0623864456740024 +723 E4F1 3 7 0.000820026182632156 3.24814652197521 0.0623864456740024 +2002 UBE2A 3 7 0.000820026182632156 3.24814652197521 0.0623864456740024 +2011 CCNG1 3 7 0.000820026182632156 3.24814652197521 0.0623864456740024 +9028 SH3BGRL3 2 2 0.000871691877932093 5.10566742579647 0.0623864456740024 +1075 IFNAR2 6 39 0.000909219499733219 1.86759645259685 0.0623864456740024 +3417 CCND1 7 55 0.0011040563656313 1.64273421305669 0.0703441627245085 +152 SOS1 10 109 0.00140677841553983 1.26617116982172 0.0788613246697833 +5758 YES1 5 30 0.00169479306853121 1.97058463576423 0.0788613246697833 +475 FES 5 30 0.00169479306853121 1.97058463576423 0.0788613246697833 +6824 IL1B 5 30 0.00169479306853121 1.97058463576423 0.0788613246697833 +1514 EPB41L1 4 19 0.00204257619053189 2.26516348792102 0.0788613246697833 +95 CRKL 7 62 0.00224497452402098 1.50713186104734 0.0788613246697833 +2777 MAP2K3 5 32 0.00228227989570501 1.89485396857421 0.0788613246697833 +188 GRB2 16 245 0.00248499401989919 0.890626990123815 0.0788613246697833 +4 GRB7 4 20 0.00249450743931036 2.20253170411913 0.0788613246697833 +6547 NUMA1 4 20 0.00249450743931036 2.20253170411913 0.0788613246697833 +13 ERRFI1 2 3 0.002563877147336 4.00694389623609 0.0788613246697833 +6366 TRIAP1 2 3 0.002563877147336 4.00694389623609 0.0788613246697833 +485 TIE1 2 3 0.002563877147336 4.00694389623609 0.0788613246697833 +1027 KCNE4 2 3 0.002563877147336 4.00694389623609 0.0788613246697833 +6197 CELSR2 2 3 0.002563877147336 4.00694389623609 0.0788613246697833 +469 PDGFRB 7 67 0.00350325776782824 1.42031176303995 0.104163530963426 +30 SHB 4 23 0.00425236950480855 2.03514326447932 0.118016403072892 +5820 RAP1A 6 54 0.00497475252068343 1.49590202180316 0.118016403072892 +5794 IL1R1 4 24 0.00498597603079399 1.98502136739822 0.118016403072892 +5506 BTC 2 4 0.00502760461521287 3.49600701920192 0.118016403072892 +4450 ZNHIT1 2 4 0.00502760461521287 3.49600701920192 0.118016403072892 +5888 NQO1 2 4 0.00502760461521287 3.49600701920192 0.118016403072892 +92 PTPRO 2 4 0.00502760461521287 3.49600701920192 0.118016403072892 +6017 ECM1 2 4 0.00502760461521287 3.49600701920192 0.118016403072892 +302 SH3KBP1 5 39 0.00551594038987694 1.6672993555707 0.126159457122314 +1259 RAD54B 3 13 0.00587280182975435 2.40018073325415 0.128668086485739 +7 PIK3R2 5 40 0.0061548531624999 1.63861431990281 0.128668086485739 +890 STAT5B 5 40 0.0061548531624999 1.63861431990281 0.128668086485739 +109 PTK2 9 113 0.00620260955032151 1.11272217001549 0.128668086485739 +44 SOCS1 6 57 0.00649453744645887 1.43554846037083 0.131661986414575 +1663 ITGB4 5 41 0.00684405330209209 1.61072308010184 0.135664345454803 +2718 ANGPT2 3 14 0.00731280617614375 2.30909759027298 0.140937424013585 +32 TEC 4 27 0.0076830666388411 1.84811132829167 0.140937424013585 +9027 PIK3C2A 2 5 0.00821608301424488 3.15942351693386 0.140937424013585 +2681 SERTAD1 2 5 0.00821608301424488 3.15942351693386 0.140937424013585 +5515 MAGEB18 2 5 0.00821608301424488 3.15942351693386 0.140937424013585 +5889 MTSS1 2 5 0.00821608301424488 3.15942351693386 0.140937424013585 +5669 GTPBP3 2 5 0.00821608301424488 3.15942351693386 0.140937424013585 +497 PIK3CB 3 15 0.00894359163891158 2.225604604155 0.145048795307439 +662 SNX6 3 15 0.00894359163891158 2.225604604155 0.145048795307439 +4988 PHB 3 15 0.00894359163891158 2.225604604155 0.145048795307439 +49 VAV2 4 29 0.00992912036910822 1.76621023236459 0.158156703022224 +141 VEGFA 6 63 0.0105025498546494 1.32467387885121 0.158521475773754 +1309 SMARCB1 3 16 0.0107701332049099 2.14853217343368 0.158521475773754 +1750 NFYB 3 16 0.0107701332049099 2.14853217343368 0.158521475773754 +5760 SERPINA3 3 16 0.0107701332049099 2.14853217343368 0.158521475773754 +1764 KLF4 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +5912 MNDA 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +1335 EID1 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +1340 CREG1 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +6427 SERPINB2 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +342 CNTNAP1 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +8133 CNOT3 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +578 IFNGR2 2 6 0.0120845968078647 2.90799781062469 0.158521475773754 +631 GRB14 3 17 0.0127964386470709 2.07696180745733 0.158533656572046 +5047 MSX1 3 17 0.0127964386470709 2.07696180745733 0.158533656572046 +5521 EHMT2 3 17 0.0127964386470709 2.07696180745733 0.158533656572046 +745 L1CAM 3 17 0.0127964386470709 2.07696180745733 0.158533656572046 +984 STAT5A 6 67 0.0139941938994954 1.25697377365741 0.166437612777999 +243 HDAC3 6 67 0.0139941938994954 1.25697377365741 0.166437612777999 +4200 CDKN1A 6 67 0.0139941938994954 1.25697377365741 0.166437612777999 +760 E2F1 7 87 0.0143188945122162 1.13245579024654 0.167465188588313 +1467 DLG1 6 68 0.0149798614073397 1.24073239083141 0.167465188588313 +47 CBLB 4 33 0.0156040547011933 1.62005214202818 0.167465188588313 +93 GRB10 4 33 0.0156040547011933 1.62005214202818 0.167465188588313 +185 CBLC 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +3798 SCAMP1 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +6613 KRT7 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +7772 SOCS5 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +144 PGF 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +3238 RND1 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +887 NAGK 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +3472 CNOT8 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +1707 NCAN 2 7 0.0165904250579577 2.70721582475009 0.167465188588313 +771 HSP90AA1 11 179 0.0171810680044457 0.826361798260256 0.167465188588313 +3473 IL23A 4 34 0.0172838640582948 1.58660412084535 0.167465188588313 +3474 IL23R 4 34 0.0172838640582948 1.58660412084535 0.167465188588313 +247 MAPKAPK5 3 19 0.0174599355815169 1.94752723475077 0.167465188588313 +273 FGFR2 3 19 0.0174599355815169 1.94752723475077 0.167465188588313 +5307 HMGB1 5 52 0.0182687697962566 1.34607637319496 0.173358964449584 +3075 GFRA1 4 35 0.0190723417521661 1.55423164525573 0.177213842113876 +7287 GDNF 4 35 0.0190723417521661 1.55423164525573 0.177213842113876 +903 PTPRS 3 20 0.0201008934889652 1.88857529548997 0.179299969921569 +630 BAG1 3 20 0.0201008934889652 1.88857529548997 0.179299969921569 +1942 ITCH 3 20 0.0201008934889652 1.88857529548997 0.179299969921569 +199 HCFC1 3 20 0.0201008934889652 1.88857529548997 0.179299969921569 +846 PPP1CA 6 73 0.0206364160942098 1.16321115697434 0.182254288673615 +6569 HUWE1 2 8 0.021692763248689 2.54005043728754 0.182811729075793 +8566 ZCCHC10 2 8 0.021692763248689 2.54005043728754 0.182811729075793 +480 CSF2RA 2 8 0.021692763248689 2.54005043728754 0.182811729075793 +2781 DUSP16 2 8 0.021692763248689 2.54005043728754 0.182811729075793 +3499 STAT3 9 139 0.0220335502958292 0.887605774760879 0.182811729075793 +7420 NGF 5 55 0.022777605575958 1.28449723377562 0.182811729075793 +12 CD82 3 21 0.0229492654423683 1.8328939926772 0.182811729075793 +636 PTPN2 3 21 0.0229492654423683 1.8328939926772 0.182811729075793 +5052 BDNF 3 21 0.0229492654423683 1.8328939926772 0.182811729075793 +2552 CDC37 3 21 0.0229492654423683 1.8328939926772 0.182811729075793 +2268 FYN 11 187 0.0229539390767812 0.779069436416368 0.182811729075793 +1459 MET 5 56 0.0244268902583697 1.26477689930753 0.187681246026711 +1310 SP3 4 38 0.0251065350205166 1.46292495217107 0.187681246026711 +2031 HSP90AB1 3 22 0.0260051624027115 1.78013879511096 0.187681246026711 +7775 TBX21 3 22 0.0260051624027115 1.78013879511096 0.187681246026711 +1851 RAPGEF1 3 22 0.0260051624027115 1.78013879511096 0.187681246026711 +5380 NT5C2 3 22 0.0260051624027115 1.78013879511096 0.187681246026711 +3720 SNAPC1 3 22 0.0260051624027115 1.78013879511096 0.187681246026711 +228 HIF1A 7 99 0.0271398021973287 0.992156621053811 0.187681246026711 +4708 CCND3 4 39 0.0273454601211611 1.43423991650318 0.187681246026711 +1619 FGFR1 4 39 0.0273454601211611 1.43423991650318 0.187681246026711 +638 SNX4 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +3631 CR2 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +3635 CBX8 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +6798 PDGFA 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +68 ELF1 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +536 TUB 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +3010 CSPG4 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +776 SUB1 2 9 0.0273526479635341 2.3968382784578 0.187681246026711 +411 SDC2 5 58 0.027951373071987 1.2264532893688 0.189696724114257 +67 SP1 8 122 0.0280717125370874 0.905223380948561 0.189696724114257 +961 FER 3 23 0.029268081337397 1.73001689802986 0.196294199646302 +2003 BCL2L1 5 59 0.0298284416941309 1.20782234096921 0.198559477546006 +633 NCK2 4 41 0.0321708821355504 1.37920831614753 0.20628505386156 +1584 HIST3H3 4 41 0.0321708821355504 1.37920831614753 0.20628505386156 +722 MAP2K4 4 41 0.0321708821355504 1.37920831614753 0.20628505386156 +177 TRAT1 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +1324 PRKRA 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +3471 CNOT7 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +2348 PJA1 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +627 PDGFB 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +1940 DTX1 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +5757 ADAM10 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +753 CNTN1 2 10 0.0335328843160608 2.27156380792227 0.20628505386156 +2968 ITGB1 7 104 0.034257638058285 0.938950805602042 0.207128361103592 +573 CDH1 4 42 0.0347588184566007 1.35277930718776 0.207128361103592 +1661 ITGA6 4 42 0.0347588184566007 1.35277930718776 0.207128361103592 +2970 ITGA4 4 42 0.0347588184566007 1.35277930718776 0.207128361103592 +2614 FOS 8 128 0.0359080723349925 0.853472242263289 0.207128361103592 +2024 BRF1 3 25 0.0364101901996309 1.636703484663 0.207128361103592 +5753 CSF2RB 3 25 0.0364101901996309 1.636703484663 0.207128361103592 +66 TIAM1 3 25 0.0364101901996309 1.636703484663 0.207128361103592 +2133 RELN 3 25 0.0364101901996309 1.636703484663 0.207128361103592 +5938 IRF1 4 43 0.037464229290598 1.3270251634536 0.207128361103592 +660 CAV1 6 85 0.039694552941245 0.998235988905106 0.207128361103592 +550 SOCS7 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +1487 CAV3 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +4371 EPS15L1 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +227 ATF3 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +233 SPIB 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +509 PIK3R3 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +1311 RING1 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +90 MATK 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +3803 TRPV1 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +5699 KLHL12 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +1617 KCNB1 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +5203 NOV 2 11 0.0401979760383665 2.16022683283531 0.207128361103592 +655 ITGA2B 3 26 0.0402857256785517 1.59310685892331 0.207128361103592 +3370 SMO 3 26 0.0402857256785517 1.59310685892331 0.207128361103592 +3415 PFDN1 3 26 0.0402857256785517 1.59310685892331 0.207128361103592 +1168 MAP3K11 3 26 0.0402857256785517 1.59310685892331 0.207128361103592 +503 YWHAG 14 282 0.0403564918803048 0.5922987226869 0.207128361103592 +3410 RELA 9 155 0.0404039628161715 0.770146071444716 0.207128361103592 +847 MYC 7 109 0.0425203433374311 0.888377986947207 0.215500831005617 +204 STAT1 7 109 0.0425203433374311 0.888377986947207 0.215500831005617 +89 SRC 12 233 0.0438518865257389 0.634033026570743 0.219833687712199 +5007 ITGA5 3 27 0.0443610580585155 1.55132263628608 0.219833687712199 +1688 CCT5 3 27 0.0443610580585155 1.55132263628608 0.219833687712199 +2717 ANGPT1 3 27 0.0443610580585155 1.55132263628608 0.219833687712199 +1781 GTF2E2 4 46 0.0462871881358394 1.25348654516939 0.225690587464229 +637 SNX2 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +882 TNC 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +884 MAGI3 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +5581 ERH 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +99 SH2B3 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +4210 PFDN6 2 12 0.047314058134317 2.06003202190362 0.225690587464229 +402 PLSCR1 5 67 0.0476937629316298 1.06996082976811 0.225954126976067 +87 PRKCA 10 185 0.0478759304915658 0.690105057791173 0.225954126976067 +3215 NOS3 3 28 0.0486332876274508 1.51120576299623 0.228320487177296 +2352 NR3C1 6 91 0.0523959765864594 0.924803082733718 0.244611594510169 +143 SHC1 9 163 0.052651823033579 0.716072426126709 0.244611594510169 +1888 EDN1 3 29 0.0530991530803366 1.47262793105002 0.244625790755118 +2693 MAGI2 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +1845 CEBPE 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +4797 PAX5 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +5404 TRIM23 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +2334 SYNGAP1 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +4209 PFDN2 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +4841 COMMD1 2 13 0.0548488320078739 1.96894887892246 0.244625790755118 +5541 CEP72 5 70 0.0557275720416876 1.02274116589601 0.247308429160126 +1819 CHEK2 3 30 0.0577550656499504 1.43547509580621 0.251304968584174 +2023 EFEMP2 3 30 0.0577550656499504 1.43547509580621 0.251304968584174 +3491 PPP2R1B 3 30 0.0577550656499504 1.43547509580621 0.251304968584174 +7562 SLBP 3 30 0.0577550656499504 1.43547509580621 0.251304968584174 +463 YWHAZ 7 117 0.058241037567345 0.812324769234612 0.25218934713627 +27 BTK 5 71 0.0585687341937513 1.00747730977999 0.252217029991024 +412 CDKN1B 4 50 0.0596933936471034 1.16309118129131 0.252217029991024 +24 MAPK1 9 168 0.0614249213978924 0.683656573168405 0.252217029991024 +477 ERBB3 3 31 0.062597141251158 1.39964543719286 0.252217029991024 +3447 PAFAH1B3 3 31 0.062597141251158 1.39964543719286 0.252217029991024 +4989 BDP1 3 31 0.062597141251158 1.39964543719286 0.252217029991024 +1421 ARF6 3 31 0.062597141251158 1.39964543719286 0.252217029991024 +86 PTPN6 7 119 0.0626650297366493 0.79416181795571 0.252217029991024 +958 STAM2 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +5750 TGFA 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +7070 HBEGF 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +2169 VBP1 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +6648 CCT8 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +693 RFX1 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +1371 EDF1 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +1779 DRAP1 2 14 0.0627715029798289 1.88545589280448 0.252217029991024 +21 PLCG1 7 120 0.0649519714728321 0.785199558353066 0.259807885891328 +4909 RHOA 7 121 0.0672889864601801 0.776314915264394 0.264553236029822 +2917 IL12RB1 5 74 0.0675806357191902 0.963016276232411 0.264553236029822 +6981 IL12B 5 74 0.0675806357191902 0.963016276232411 0.264553236029822 +1074 TP73 3 32 0.0676212307340799 1.36504767265982 0.264553236029822 +5792 IL4R 3 32 0.0676212307340799 1.36504767265982 0.264553236029822 +1449 NEDD8 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +422 CUL3 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +3032 SOCS6 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +498 IRS4 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +9257 SGMS1 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +2813 GNA11 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +1971 PFDN4 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +124 CBX3 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +5756 IFNGR1 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +5910 LEP 2 15 0.0710527201092008 1.80838346208316 0.265067664464457 +6 DLG4 6 99 0.0727890232574062 0.834459246902798 0.265067664464457 +531 NTRK1 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +5746 FLT1 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +1706 POLR3E 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +7478 POLR3B 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +7479 POLR3D 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +7480 POLR3H 3 33 0.0728229483373686 1.33159965147699 0.265067664464457 +154 NCK1 5 76 0.0739931036453473 0.934421363855618 0.265067664464457 +1598 TUBA1A 5 76 0.0739931036453473 0.934421363855618 0.265067664464457 +2255 BCL2 5 76 0.0739931036453473 0.934421363855618 0.265067664464457 +478 TUBG1 5 76 0.0739931036453473 0.934421363855618 0.265067664464457 +516 DYNLL1 7 125 0.0771384006254262 0.741526022661221 0.274365831153049 +2009 CSNK1D 5 77 0.0773195999848346 0.920420125216166 0.274365831153049 +3898 POLR3A 3 34 0.0781976984288919 1.29922717588737 0.274365831153049 +5946 HSF1 3 34 0.0781976984288919 1.29922717588737 0.274365831153049 +2535 PPIA 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +2979 CTLA4 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +3097 UGCG 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +1036 MDK 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +7700 EOMES 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +5881 EEF2K 2 16 0.0796645182383852 1.7368130961068 0.274365831153049 +624 ITGB3 5 78 0.0807256315353389 0.906609141805461 0.275244464213464 +920 AKAP9 5 78 0.0807256315353389 0.906609141805461 0.275244464213464 +3414 AKT1 10 204 0.0808453471120265 0.585154194481273 0.275244464213464 +546 GIT1 4 56 0.083230702470647 1.04105925838556 0.281874358304388 +472 CD28 3 35 0.0837407006173349 1.26786300655293 0.281874358304388 +1610 FGFR3 3 35 0.0837407006173349 1.26786300655293 0.281874358304388 +4039 CDK5RAP2 5 79 0.084210640303376 0.892983271009618 0.282390568235381 +1650 UBB 4 57 0.0875385928494264 1.02207888596917 0.287322159520121 +26 HRAS 6 104 0.0875477100149663 0.781801989858716 0.287322159520121 +5306 PTN 5 80 0.0877740077007844 0.879537575931635 0.287322159520121 +716 PTPRA 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +5793 ELN 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +1879 PFDN5 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +897 DNAJA3 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +4535 IL27 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +4885 MLL 2 17 0.0885802621838938 1.67001030720214 0.287322159520121 +4724 LZTS1 3 36 0.0894470133146053 1.23744601876555 0.289082376364594 +35 PTK2B 5 82 0.0951330513065994 0.853167929660788 0.302829642199571 +2414 NUP153 5 82 0.0951330513065994 0.853167929660788 0.302829642199571 +2017 USP7 3 37 0.0953115558254425 1.20792048280271 0.302829642199571 +1698 NGFR 4 59 0.0964705714746852 0.985153705330878 0.302829642199571 +131 VAV3 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +3247 PDCD6IP 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +6609 EDNRA 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +505 PPM1A 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +5772 CD22 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +5855 CCT4 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +2915 IL27RA 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +2393 TICAM2 2 18 0.0977745929971708 1.60737852340025 0.302829642199571 +766 SIN3A 5 83 0.0989272028767142 0.840235039268076 0.304921307262438 +2138 EWSR1 6 108 0.100449588740231 0.741545795693674 0.304921307262438 +1403 RPS6KB1 4 60 0.101091099367828 0.967184162249406 0.304921307262438 +561 PRMT1 3 38 0.101329129037293 1.17923544713482 0.304921307262438 +764 SMARCA4 3 38 0.101329129037293 1.17923544713482 0.304921307262438 +4212 POLR3F 3 38 0.101329129037293 1.17923544713482 0.304921307262438 +4974 NUP214 5 84 0.102796667386947 0.827464427841807 0.304921307262438 +130 ABL1 6 109 0.103824107889909 0.731724463985723 0.304921307262438 +862 PXN 5 85 0.106740549539804 0.814852037929711 0.304921307262438 +4056 NFKBIA 5 85 0.106740549539804 0.814852037929711 0.304921307262438 +2417 EPN1 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +686 WRN 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +4857 EGR1 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +6463 TOP2A 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +4722 BMX 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +9 ERBB2IP 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +7689 DAPP1 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +618 IRF3 2 19 0.107223376222542 1.54842658413945 0.304921307262438 +1660 HLA-DRB1 3 39 0.107494434780304 1.15134420733384 0.304921307262438 +383 WT1 3 40 0.113802093924211 1.12420384677917 0.304921307262438 +542 DAB1 3 40 0.113802093924211 1.12420384677917 0.304921307262438 +6841 IL2 6 112 0.114297785521127 0.702813462817509 0.304921307262438 +268 CEBPB 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +1319 RBBP7 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +1055 PPP2CA 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +495 CD3E 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7153 AZI1 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7182 CEP164 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7183 CEP290 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7184 CEP78 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7546 SDCCAG8 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +7618 TSGA14 4 63 0.115547707654446 0.91511263562204 0.304921307262438 +1327 CCNA1 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +4719 GADD45A 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +572 PTPRF 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +643 WWP2 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +5063 NID1 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +885 F11R 2 20 0.116903652081828 1.49274528132668 0.304921307262438 +3236 ESR1 9 193 0.118685716834705 0.53521608075962 0.304921307262438 +1728 NR2F2 3 41 0.120246663275947 1.0977748378194 0.304921307262438 +1474 GEMIN5 3 41 0.120246663275947 1.0977748378194 0.304921307262438 +3250 GEMIN6 3 41 0.120246663275947 1.0977748378194 0.304921307262438 +7721 IL4 3 41 0.120246663275947 1.0977748378194 0.304921307262438 +1022 CEP135 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +1529 ODF2 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +1992 TUBGCP3 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +2234 CETN2 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +4046 CEP110 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +4274 CEP152 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +6770 CEP192 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +7034 CEP250 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +7125 ALMS1 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +7598 SSNA1 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +7620 TUBGCP4 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +7621 TUBGCP5 4 64 0.120558052334981 0.898333607323487 0.304921307262438 +2239 SFI1 4 65 0.125660533075929 0.881827809194482 0.304921307262438 +3043 TUBB4 4 65 0.125660533075929 0.881827809194482 0.304921307262438 +3789 TUBG2 4 65 0.125660533075929 0.881827809194482 0.304921307262438 +5930 NEDD1 4 65 0.125660533075929 0.881827809194482 0.304921307262438 +450 NCOR1 4 65 0.125660533075929 0.881827809194482 0.304921307262438 +1878 ZBTB17 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +147 ATR 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +7101 ADH4 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +7102 ADH6 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +7103 ADH7 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +653 NUMB 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +3091 GTF3C2 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +171 PIK3CG 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +2650 JUND 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +576 CDH5 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +1689 CCT7 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +2174 CCT3 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +3591 SPHK1 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +2629 SNAPC4 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +2631 SNAPC2 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +7647 ZNF143 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +4040 EBI3 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +651 ILK 2 21 0.126793587517561 1.43999008376044 0.304921307262438 +3261 KRT18 3 42 0.126822651338974 1.07202069408524 0.304921307262438 +1262 ATM 3 42 0.126822651338974 1.07202069408524 0.304921307262438 +2806 GEMIN7 3 42 0.126822651338974 1.07202069408524 0.304921307262438 +4175 MMP2 3 42 0.126822651338974 1.07202069408524 0.304921307262438 +2401 BAD 3 42 0.126822651338974 1.07202069408524 0.304921307262438 +225 SMAD3 10 225 0.130422659107695 0.480235144655387 0.308785146615639 +1990 PCNT 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +4623 CEP57 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +5548 CEP63 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +6122 OFD1 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +6177 DYNC1I2 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +7225 DCTN3 4 66 0.130852898453713 0.865586426368474 0.308785146615639 +222 MAPK9 3 43 0.133524532992602 1.04690766627779 0.312608617924937 +3815 SNUPN 3 43 0.133524532992602 1.04690766627779 0.312608617924937 +17 PICK1 3 43 0.133524532992602 1.04690766627779 0.312608617924937 +8446 CCDC90B 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +2016 STK11 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +65 TP53BP2 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +490 GHR 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +2402 TSHR 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +1249 EFNB2 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +1350 BRF2 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +454 GADD45B 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +3135 IL18RAP 2 22 0.136872430029046 1.38986818667933 0.313051814322843 +483 UBTF 3 44 0.140346763146992 1.02240447506758 0.318967455604604 +1515 ACTR1A 4 68 0.141498014768962 0.833863719877226 0.318967455604604 +1989 TUBB2C 4 68 0.141498014768962 0.833863719877226 0.318967455604604 +7243 DYNC1H1 4 68 0.141498014768962 0.833863719877226 0.318967455604604 +1638 RASA1 5 94 0.145413368561415 0.707859985567495 0.318967455604604 +2923 PLK4 4 69 0.146946014291467 0.818366762496372 0.318967455604604 +934 PRKAR1A 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +2835 AP2A2 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +5752 AGTR1 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +5774 TFAP2A 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +7098 ADH1A 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +7099 ADH1B 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +7100 ADH1C 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +7337 HSD11B1 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +6695 GCKR 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +470 PFN1 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +344 CTSB 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +5241 APLP1 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +4733 RXRG 2 23 0.147120463237774 1.34212864875524 0.318967455604604 +3321 SAP18 3 45 0.147283789427004 0.998482075801028 0.318967455604604 +1369 NCOA2 3 45 0.147283789427004 0.998482075801028 0.318967455604604 +819 PLK1 8 175 0.147325775458629 0.518825795847355 0.318967455604604 +5 PAK1 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +1463 SMN1 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +4673 NUP205 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +7075 AAAS 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +7432 NUP188 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +7433 NUP35 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +7437 NUPL2 4 70 0.152474404730848 0.803102906380353 0.321202725217107 +338 PRKACA 10 233 0.152847987734016 0.442872543400085 0.321202725217107 +2615 JUN 8 177 0.154030627780432 0.506729514328636 0.321202725217107 +205 STAT4 3 46 0.15433006393569 0.975113450574336 0.321202725217107 +487 IRS2 3 46 0.15433006393569 0.975113450574336 0.321202725217107 +5298 KRT15 3 46 0.15433006393569 0.975113450574336 0.321202725217107 +4806 CDC42 5 96 0.154732626968658 0.685534919464759 0.321202725217107 +1694 MUC1 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +7339 HSD3B7 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +7426 NSDHL 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +1321 SNW1 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +7458 PHAX 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +56 MST1R 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +4263 TICAM1 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +5317 PAICS 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +2577 NFIC 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +3134 IL18R1 2 24 0.15751896412084 1.29655477331248 0.321202725217107 +74 NUP155 4 71 0.15808071341963 0.788065192511405 0.321202725217107 +7436 NUP93 4 71 0.15808071341963 0.788065192511405 0.321202725217107 +937 PRKAR2B 4 71 0.15808071341963 0.788065192511405 0.321202725217107 +5675 CEP76 4 71 0.15808071341963 0.788065192511405 0.321202725217107 +279 SLC9A3R1 3 47 0.161480054145911 0.952273423941977 0.326621787524155 +33 IL6ST 3 47 0.161480054145911 0.952273423941977 0.326621787524155 +5702 KRTAP4-12 4 72 0.163762436665786 0.773246968909768 0.328260884282879 +3200 NUP88 4 72 0.163762436665786 0.773246968909768 0.328260884282879 +1991 CENPJ 4 72 0.163762436665786 0.773246968909768 0.328260884282879 +175 BCAR1 4 72 0.163762436665786 0.773246968909768 0.328260884282879 +1552 CHEK1 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +1649 NPM1 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +2025 TAF1B 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +2026 TAF1C 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +1303 AHR 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +104 SH2B2 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +5771 CD19 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +122 NFATC1 2 25 0.168050161853119 1.25295814757279 0.329711530816626 +850 MAP2K1 3 48 0.168728252966375 0.929938499107293 0.329711530816626 +2584 SIN3B 3 48 0.168728252966375 0.929938499107293 0.329711530816626 +1596 EPOR 3 48 0.168728252966375 0.929938499107293 0.329711530816626 +1320 RBBP4 4 73 0.169517043863221 0.758641872832776 0.329711530816626 +3931 NUP210 4 73 0.169517043863221 0.758641872832776 0.329711530816626 +2606 NFKB1 6 126 0.16966097830138 0.577731585325588 0.329711530816626 +23 TYK2 5 100 0.174083708882726 0.642298054502625 0.334148447105062 +2316 PSMD10 4 74 0.175341981471451 0.74424381424557 0.334148447105062 +3098 NUP54 4 74 0.175341981471451 0.74424381424557 0.334148447105062 +3204 RAE1 4 74 0.175341981471451 0.74424381424557 0.334148447105062 +5376 PCM1 4 74 0.175341981471451 0.74424381424557 0.334148447105062 +5254 MCM2 3 49 0.176069188026276 0.908086711922947 0.334148447105062 +1475 GEMIN4 3 49 0.176069188026276 0.908086711922947 0.334148447105062 +2091 SIP1 3 49 0.176069188026276 0.908086711922947 0.334148447105062 +172 MAPK3 6 128 0.178363801827637 0.561044803704091 0.334148447105062 +489 TAF1A 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +1846 HIPK2 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +148 SPI1 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +1301 SUV39H1 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +5019 GSN 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +3887 SNAPC5 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +7719 IL18 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +874 APOE 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +1216 TRIM24 2 26 0.178697198200999 1.21117392493556 0.334148447105062 +858 SMAD9 5 101 0.179061611789484 0.631768864615074 0.334148447105062 +306 POLA1 3 50 0.183497430220692 0.886697500426964 0.341711289680286 +4739 CDC25A 2 27 0.189444089412398 1.17105705164571 0.350589476671907 +482 RRAS2 2 27 0.189444089412398 1.17105705164571 0.350589476671907 +3012 HSPG2 2 27 0.189444089412398 1.17105705164571 0.350589476671907 +1365 UBE3A 3 51 0.191007601556957 0.865751587971867 0.352751098527548 +71 MAPK8 6 131 0.191747669170282 0.536511722889141 0.353386200206388 +5736 CEP70 4 77 0.193212977223658 0.702234738405826 0.35535252718248 +252 PIAS1 3 52 0.198594382340396 0.845230878282051 0.361631407041161 +1651 CD3G 3 52 0.198594382340396 0.845230878282051 0.361631407041161 +1347 HDAC2 5 105 0.199489200342943 0.590704302898192 0.361631407041161 +57 ERBB4 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +2322 NCL 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +3404 CCNA2 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +4208 CEBPA 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +2775 MAP2K6 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +1950 EXOSC6 2 28 0.200275689549702 1.1324792196995 0.361631407041161 +2578 SAP30 3 53 0.206252517735979 0.825118361007624 0.36869187539177 +113 INPP5D 3 53 0.206252517735979 0.825118361007624 0.36869187539177 +98 GRAP2 3 53 0.206252517735979 0.825118361007624 0.36869187539177 +1633 CD3D 3 53 0.206252517735979 0.825118361007624 0.36869187539177 +18 DDX20 3 53 0.206252517735979 0.825118361007624 0.36869187539177 +2010 TSG101 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +1810 TRAM2 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +7121 ALDH1A1 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +7701 EPO 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +1721 BANF1 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +566 PLAU 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +2430 SMPD1 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +2992 PIAS3 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +2407 ITGA3 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +2590 ABCA1 2 29 0.211177655214099 1.09532638445569 0.370079505797596 +5358 MAGEA11 3 54 0.21397682374081 0.80539802653954 0.372787747610942 +499 HGS 3 54 0.21397682374081 0.80539802653954 0.372787747610942 +1921 BMPR1B 3 54 0.21397682374081 0.80539802653954 0.372787747610942 +703 CSNK1E 4 81 0.217868199360343 0.648793526261153 0.378827356392642 +973 TUBA4A 5 109 0.220668522154537 0.551224913980361 0.381049382995177 +832 CASP7 3 55 0.221762192600678 0.786054789017197 0.381049382995177 +2721 DOK2 2 30 0.222136411611538 1.05949672584234 0.381049382995177 +7611 TFDP1 2 30 0.222136411611538 1.05949672584234 0.381049382995177 +3432 STUB1 2 30 0.222136411611538 1.05949672584234 0.381049382995177 +2996 CD79B 2 30 0.222136411611538 1.05949672584234 0.381049382995177 +283 SUFU 2 30 0.222136411611538 1.05949672584234 0.381049382995177 +1735 RAF1 5 110 0.226069055119377 0.541588489562003 0.387051050223579 +1797 TAF9 3 56 0.229603597702377 0.767074416600809 0.390902434138592 +2918 IL12RB2 3 56 0.229603597702377 0.767074416600809 0.390902434138592 +448 RXRA 4 83 0.230503327574678 0.623090024442172 0.390902434138592 +1947 SFN 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +2418 EPS15 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +3421 RAD51 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +1044 GRIN2D 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +4203 ATF2 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +6071 GNAO1 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +1828 PTPN12 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +6078 IL6 2 31 0.233139119912254 1.0248989613093 0.390902434138592 +202 CREBBP 8 199 0.236465197989072 0.382197468915233 0.395735378248128 +1647 HD 3 57 0.237496097971986 0.748443468201217 0.396716328447587 +3524 BRCA1 5 113 0.242498890945113 0.513211564760906 0.40185035443701 +540 PLD2 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +1924 MAP4K1 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +759 RBL2 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +88 KITLG 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +1547 RET 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +2145 SH3GL3 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +4534 USHBP1 2 32 0.244173645857466 0.991450940126466 0.40185035443701 +78 HSPA8 3 58 0.245434841807853 0.730149235962518 0.403182097408112 +1662 SFRS1 6 143 0.248719946122904 0.443839009457094 0.407827558716233 +1727 NUP62 4 86 0.249781963095076 0.585712033526362 0.408817451524417 +1954 CDC2 8 203 0.252904997964861 0.361070197636611 0.410945574684203 +6559 IL12A 3 59 0.253415070575701 0.712179692881047 0.410945574684203 +4749 IGF1R 3 59 0.253415070575701 0.712179692881047 0.410945574684203 +1690 MXD1 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +2679 CDC7 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +969 APEX1 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +773 PTMA 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +2434 NEDD4 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +1045 GNA13 2 33 0.25522852956844 0.959078464536846 0.410945574684203 +911 CSNK2A1 7 174 0.256285631813741 0.389917330163188 0.411904114554697 +103 LCK 6 145 0.258665448146103 0.429172387660128 0.414981258536554 +595 JAK1 5 116 0.259237486480706 0.485599328021527 0.41515231228149 +3915 PML 3 60 0.261432121691905 0.694523445019913 0.417168966993165 +2084 NXF1 3 60 0.261432121691905 0.694523445019913 0.417168966993165 +25 VAV1 4 88 0.262821760416763 0.561534250008257 0.41863751837813 +2481 RANBP2 6 146 0.263678212456178 0.421916512180845 0.41893001271795 +276 PRKCD 5 117 0.264878164879884 0.476558065638879 0.41893001271795 +1642 BCR 2 34 0.266292956514661 0.927714295202409 0.41893001271795 +4702 RBL1 2 34 0.266292956514661 0.927714295202409 0.41893001271795 +2056 CASP10 2 34 0.266292956514661 0.927714295202409 0.41893001271795 +7717 IGHE 2 34 0.266292956514661 0.927714295202409 0.41893001271795 +2226 DLG3 2 34 0.266292956514661 0.927714295202409 0.41893001271795 +201 AR 6 147 0.268716172414618 0.41471128313673 0.421714801293396 +1381 CSK 3 61 0.269481431319771 0.677169687843615 0.421714801293396 +220 NCOA1 3 61 0.269481431319771 0.677169687843615 0.421714801293396 +625 EIF2AK2 2 35 0.277356729599348 0.897297307415029 0.431766497037728 +1699 ZHX1 2 35 0.277356729599348 0.897297307415029 0.431766497037728 +5777 CD79A 2 35 0.277356729599348 0.897297307415029 0.431766497037728 +19 CD4 5 120 0.281961332668979 0.449902786271142 0.438169875854929 +626 PTPN1 3 63 0.285659078154833 0.643329137955127 0.442030818129219 +429 KPNB1 3 63 0.285659078154833 0.643329137955127 0.442030818129219 +2520 CDC45L 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +2148 UTP14A 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +687 NCOA6 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +724 DLG2 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +455 GADD45G 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +4353 GTF3C1 2 36 0.288410242321979 0.867771771452189 0.442030818129219 +1294 PAFAH1B1 6 151 0.289097743007432 0.38638278293501 0.442324505596277 +1602 FASLG 3 64 0.293778800736137 0.626823339826122 0.447185478253642 +4656 IL2RA 3 64 0.293778800736137 0.626823339826122 0.447185478253642 +6556 GFI1B 3 64 0.293778800736137 0.626823339826122 0.447185478253642 +2946 BIRC5 4 93 0.29593085093546 0.50348558216786 0.448929114004134 +2822 C1orf103 4 93 0.29593085093546 0.50348558216786 0.448929114004134 +4803 FCER1A 2 37 0.299444452978925 0.839086735784299 0.451189952799326 +142 PLCG2 2 37 0.299444452978925 0.839086735784299 0.451189952799326 +7361 MAP3K1 2 37 0.299444452978925 0.839086735784299 0.451189952799326 +5960 MYOC 2 37 0.299444452978925 0.839086735784299 0.451189952799326 +1648 IL2RB 3 65 0.301913555622921 0.610581957000115 0.453378605413545 +79 GTF2B 3 65 0.301913555622921 0.610581957000115 0.453378605413545 +2966 PPP2R1A 4 94 0.302620516818751 0.492262003504089 0.453676472272817 +1404 AP2A1 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +2018 AURKA 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +431 JUP 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +173 KHDRBS1 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +508 GNAQ 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +957 PRMT5 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +4748 ACTN2 2 38 0.310450859864571 0.811195495983323 0.459869473015249 +82 LYN 5 125 0.310875888148201 0.40696002426229 0.459869473015249 +474 GTF2H1 4 96 0.316048763902647 0.470178465337344 0.466747512253578 +264 MAPK14 5 126 0.316711215001375 0.398582768485222 0.466952733522689 +2154 KIAA1377 3 67 0.318212103904104 0.578859250508867 0.468391413667427 +4176 MMP9 2 39 0.321421477436693 0.784055135428649 0.470784824094467 +6362 TAF4B 2 39 0.321421477436693 0.784055135428649 0.470784824094467 +758 HSPA5 2 39 0.321421477436693 0.784055135428649 0.470784824094467 +2425 CDK9 3 68 0.326368138787264 0.563362293128012 0.476465433385007 +1645 JAK3 3 68 0.326368138787264 0.563362293128012 0.476465433385007 +3569 CTNNB1 6 159 0.330733520048965 0.331953427443424 0.480478349372192 +392 KPNA2 2 40 0.332348813411035 0.757626126468879 0.480478349372192 +393 KPNA1 2 40 0.332348813411035 0.757626126468879 0.480478349372192 +1652 MS4A2 2 40 0.332348813411035 0.757626126468879 0.480478349372192 +1783 GTF2A2 2 40 0.332348813411035 0.757626126468879 0.480478349372192 +2636 TAF13 2 40 0.332348813411035 0.757626126468879 0.480478349372192 +997 NEK2 5 129 0.334294687464019 0.373853001289611 0.482509484171367 +2049 COPS6 3 70 0.342675150430703 0.533060723143045 0.490636947599609 +465 CAMK2A 2 41 0.343225846751296 0.731871982734718 0.490636947599609 +1375 ADRBK1 2 41 0.343225846751296 0.731871982734718 0.490636947599609 +2701 FOXA2 2 41 0.343225846751296 0.731871982734718 0.490636947599609 +1447 TGFB1 2 41 0.343225846751296 0.731871982734718 0.490636947599609 +1402 PAK2 2 41 0.343225846751296 0.731871982734718 0.490636947599609 +3854 SFRS7 5 131 0.34606676766961 0.357690802708863 0.493906490818067 +1069 TUBB 4 101 0.349799309907991 0.416972649885576 0.498436077376882 +5963 SUMO4 3 71 0.35081902265178 0.518242499541408 0.499091815319598 +4287 CLASP1 5 132 0.351963375579741 0.349703924029289 0.499922501619632 +568 MYOD1 2 42 0.354046006521912 0.706758954927266 0.500489758823368 +1807 TAF5 2 42 0.354046006521912 0.706758954927266 0.500489758823368 +6636 GTF2E1 2 42 0.354046006521912 0.706758954927266 0.500489758823368 +1316 MNAT1 4 102 0.356562848047705 0.406656025395782 0.503250095662267 +3451 NDE1 5 133 0.357865128977639 0.341778549313534 0.504290197548268 +3659 CAPN1 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +6178 UGDH 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +3380 MBP 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +5077 FCER1G 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +1787 TAF6 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +2541 TAF12 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +218 NRIP1 2 43 0.364803151572122 0.682255763717062 0.508444392503645 +935 XRCC6 3 73 0.367070555144568 0.48923934487721 0.510010802475007 +1269 RAN 3 73 0.367070555144568 0.48923934487721 0.510010802475007 +168 CASP3 5 135 0.369678479738537 0.326108518725751 0.511017555390698 +3502 CKAP5 5 135 0.369678479738537 0.326108518725751 0.511017555390698 +1894 YWHAE 5 135 0.369678479738537 0.326108518725751 0.511017555390698 +3542 EIF4E 4 104 0.370086704912994 0.386329899498557 0.511017555390698 +3764 MAPT 2 44 0.375491551020938 0.658333364450505 0.516215556147359 +1784 GTF2A1 2 44 0.375491551020938 0.658333364450505 0.516215556147359 +709 MAPRE1 5 136 0.375587327286588 0.318362020683586 0.516215556147359 +244 UBE2I 4 105 0.37684304172765 0.376316336249571 0.517144604955482 +1341 TRAF2 6 168 0.378384802174717 0.273957028559507 0.518462739692547 +972 CD247 3 75 0.38325247438367 0.461041252448172 0.524327004831646 +221 EP300 7 201 0.384551167108279 0.237403642822354 0.525298072068278 +1376 TAF11 2 45 0.386105865513679 0.634964739223814 0.525811346623209 +378 FEZ1 2 45 0.386105865513679 0.634964739223814 0.525811346623209 +1050 GRIN1 2 46 0.396641129221769 0.612124712591455 0.538514288075826 +2540 TAF10 2 46 0.396641129221769 0.612124712591455 0.538514288075826 +1374 ZBTB16 3 77 0.399340681390125 0.433604398241624 0.541355452583574 +7435 NUP85 5 141 0.405100052856135 0.280479700556445 0.548329661832583 +1774 TAF4 2 47 0.407092732558474 0.589789787756771 0.550191996124483 +5370 SAT1 2 48 0.417456405584217 0.567938000572426 0.561645722143472 +1462 COIL 2 48 0.417456405584217 0.567938000572426 0.561645722143472 +5785 HGF 2 48 0.417456405584217 0.567938000572426 0.561645722143472 +118 INS 3 80 0.42324870404396 0.393789056892794 0.568581090372308 +763 HDAC1 6 177 0.426174299792666 0.219031760234857 0.571158018341066 +3561 GNAI2 2 49 0.427728202076045 0.546548789076441 0.571158018341066 +2179 CDK5 2 49 0.427728202076045 0.546548789076441 0.571158018341066 +731 DNM1 2 49 0.427728202076045 0.546548789076441 0.571158018341066 +2799 SNRPD2 5 145 0.428596294776488 0.251144951117547 0.571461726368651 +2080 U2AF2 5 146 0.434444453724017 0.243939722073431 0.57839470555496 +3752 FAS 2 50 0.437904484236684 0.525602876621346 0.579282968008018 +5302 MAX 2 50 0.437904484236684 0.525602876621346 0.579282968008018 +1267 CSNK1A1 2 50 0.437904484236684 0.525602876621346 0.579282968008018 +4197 CSNK2B 2 50 0.437904484236684 0.525602876621346 0.579282968008018 +1658 IRS1 3 82 0.439008168580067 0.368085555073812 0.579282968008018 +733 ARNT 3 82 0.439008168580067 0.368085555073812 0.579282968008018 +1099 APP 3 83 0.446827100117769 0.355473165161716 0.58592355125135 +2240 IL2RG 3 83 0.446827100117769 0.355473165161716 0.58592355125135 +329 ATN1 3 83 0.446827100117769 0.355473165161716 0.58592355125135 +4151 POLR2F 6 181 0.447277562609643 0.195522314878721 0.58592355125135 +1315 CTBP1 2 51 0.44798190801953 0.505082166931531 0.58592355125135 +96 DOK1 2 51 0.44798190801953 0.505082166931531 0.58592355125135 +4815 ARF1 2 52 0.457957409046696 0.484969649657103 0.597219311212942 +4979 POU2F1 2 52 0.457957409046696 0.484969649657103 0.597219311212942 +1809 POLR2E 6 184 0.463001124887172 0.178232369655213 0.602628954759795 +1087 TRAF6 4 118 0.46345679704621 0.254336759547928 0.602628954759795 +806 SOCS3 2 53 0.467828189098096 0.465249315189017 0.606169270729882 +275 PRKCE 2 53 0.467828189098096 0.465249315189017 0.606169270729882 +5303 POLR2L 6 185 0.468218192301445 0.172532274891068 0.606169270729882 +181 GAB2 2 54 0.4775917031503 0.445906077666677 0.615697051352885 +1006 PRKCZ 3 87 0.477648385130265 0.306529780639897 0.615697051352885 +2821 INSR 3 87 0.477648385130265 0.306529780639897 0.615697051352885 +4672 FN1 3 88 0.485230501296624 0.294652648902425 0.622669222169922 +4931 NCBP1 5 155 0.486380352085156 0.181258773332132 0.622669222169922 +4825 ARRB2 2 55 0.487245646944625 0.426925705250288 0.622669222169922 +2865 HLA-A 2 55 0.487245646944625 0.426925705250288 0.622669222169922 +7637 VAMP2 2 55 0.487245646944625 0.426925705250288 0.622669222169922 +1867 BMPR2 2 55 0.487245646944625 0.426925705250288 0.622669222169922 +861 LRP1 2 56 0.496787945064708 0.408294756850696 0.633955432042518 +6346 ERCC3 3 90 0.500234704662845 0.271305613331481 0.637441937941796 +3202 ACVR1 2 57 0.506216739504444 0.390000524611995 0.64414455297855 +4737 POLR2H 6 193 0.509411944055755 0.128020269003112 0.647286971649193 +3503 POLR2K 6 194 0.514482722459127 0.122587503435642 0.65119223304771 +7199 CPSF2 4 126 0.514675475671116 0.185898839241157 0.65119223304771 +457 YWHAB 4 126 0.514675475671116 0.185898839241157 0.65119223304771 +4842 CREB1 2 58 0.515530378707894 0.372030981530526 0.651349996894392 +197 GTF2F2 5 161 0.520070541387391 0.141486884065638 0.654455523695549 +2090 SFRS11 4 127 0.520923118636592 0.177655941801713 0.654455523695549 +7200 CPSF3 4 127 0.520923118636592 0.177655941801713 0.654455523695549 +7233 DHX38 4 127 0.520923118636592 0.177655941801713 0.654455523695549 +3959 PSMA3 3 93 0.52231803106705 0.237257534135729 0.654624960979805 +1009 TERT 2 59 0.524727407063409 0.354374733669392 0.654624960979805 +394 DAXX 2 59 0.524727407063409 0.354374733669392 0.654624960979805 +4621 HCK 2 59 0.524727407063409 0.354374733669392 0.654624960979805 +5770 PSEN1 2 59 0.524727407063409 0.354374733669392 0.654624960979805 +4313 CDC40 4 128 0.527132828688427 0.169478597889976 0.655791468884347 +7558 SFRS6 4 128 0.527132828688427 0.169478597889976 0.655791468884347 +841 PPP1CC 3 94 0.529560806262049 0.226156046696764 0.65789448354561 +6837 MAGOH 4 129 0.533303649207608 0.161365758426208 0.661327009600941 +2338 B2M 2 60 0.53380655483484 0.337020976493092 0.661327009600941 +3833 RBM8A 4 130 0.539434662650956 0.153316399309228 0.667372703307424 +654 PDPK1 2 61 0.542766728513317 0.319959454903158 0.669637512909929 +4575 POLA2 2 61 0.542766728513317 0.319959454903158 0.669637512909929 +4922 SFRS5 4 131 0.545524990051943 0.145329520629654 0.671183849829425 +7630 UPF3B 4 131 0.545524990051943 0.145329520629654 0.671183849829425 +2568 SFRS9 4 132 0.551573790504199 0.137404145913899 0.674942997810319 +4293 SRRM1 4 132 0.551573790504199 0.137404145913899 0.674942997810319 +6551 U2AF1 4 132 0.551573790504199 0.137404145913899 0.674942997810319 +418 RBX1 2 62 0.55160700157368 0.303180426604606 0.674942997810319 +4729 CPSF1 4 133 0.557580260629053 0.129539321397448 0.680785694206002 +1790 CCNH 3 98 0.557908455677789 0.18291918173463 0.680785694206002 +216 SUMO1 2 63 0.5603266056202 0.286674628475601 0.680941869500297 +449 NCOR2 2 63 0.5603266056202 0.286674628475601 0.680941869500297 +1994 IKBKG 2 63 0.5603266056202 0.286674628475601 0.680941869500297 +3830 SFRS4 4 134 0.563543634028422 0.121734115326116 0.683919621161024 +298 ZAP70 2 64 0.568924921906782 0.270433245649594 0.68951226948485 +1823 CDK7 3 100 0.571694067040413 0.161968180517216 0.691928233107257 +2567 SFRS3 4 136 0.575338206586045 0.106298937546605 0.69257986541802 +3984 RNPS1 4 136 0.575338206586045 0.106298937546605 0.69257986541802 +7434 NUP43 4 136 0.575338206586045 0.106298937546605 0.69257986541802 +491 RAC1 4 136 0.575338206586045 0.106298937546605 0.69257986541802 +2057 RIPK1 2 65 0.577401473217381 0.254447883051571 0.694126838423051 +3201 NUP133 4 137 0.581168052746696 0.0986672064590168 0.695841480604098 +4658 NUP37 4 137 0.581168052746696 0.0986672064590168 0.695841480604098 +7431 NUP160 4 137 0.581168052746696 0.0986672064590168 0.695841480604098 +372 ITGAV 2 66 0.585755916092849 0.238710539158346 0.699456863661073 +7311 HADH 2 66 0.585755916092849 0.238710539158346 0.699456863661073 +2083 SFRS2 4 138 0.586952095009321 0.0910915738363167 0.699948220251757 +1466 SNRPD1 4 139 0.592689743244591 0.0835712083869158 0.705846797028271 +207 SMAD4 6 211 0.597217447460633 0.03430622963758 0.709870533142958 +3249 SNRPF 4 140 0.598380440780564 0.0761052971568104 0.709870533142958 +29 SYK 3 104 0.598455875474781 0.121311866881211 0.709870533142958 +530 GNB2L1 2 68 0.602097727166834 0.207949725661472 0.713241929127245 +2472 ATXN1 4 142 0.609618920645795 0.0613336740332846 0.721193736360808 +3890 AURKB 3 106 0.61142188548388 0.101574030154429 0.722368638214067 +1465 SNRPD3 4 143 0.615165751336626 0.054026423197195 0.725830489672315 +2507 PRPF6 3 109 0.630341500647569 0.0726630289862156 0.74275378940242 +5444 SNRPG 4 146 0.631511546705121 0.0324100225431483 0.743150791109456 +5086 CDC27 2 72 0.633314106811008 0.149090633526689 0.743310767467656 +1110 TNF 2 72 0.633314106811008 0.149090633526689 0.743310767467656 +5128 ATP5C1 3 110 0.63650547966149 0.0632045983233613 0.745095653357019 +5398 NHP2L1 3 110 0.63650547966149 0.0632045983233613 0.745095653357019 +5481 NUDT21 3 111 0.642597745351728 0.0538326919929109 0.751241400856804 +1468 CSNK2A2 2 74 0.648192874131279 0.120892541097651 0.755801364346537 +2882 EIF2S2 2 74 0.648192874131279 0.120892541097651 0.755801364346537 +2854 NCBP2 4 150 0.65260533208556 0.00427441200995293 0.759302274774633 +5352 RBMX 3 113 0.654566420657891 0.0353421441497863 0.759302274774633 +416 GSK3B 2 75 0.655451515220255 0.107081557686945 0.759302274774633 +7648 ZW10 2 75 0.655451515220255 0.107081557686945 0.759302274774633 +176 UNC119 2 75 0.655451515220255 0.107081557686945 0.759302274774633 +6107 SNRPB 4 151 0.657751773672216 -0.00264141271440188 0.76097870572713 +1293 YWHAQ 2 76 0.662590482337636 0.093455686891101 0.764593415582369 +3480 UBE2D1 2 76 0.662590482337636 0.093455686891101 0.764593415582369 +7477 POLR2I 4 153 0.667890728234075 -0.0163358229351998 0.769713862512655 +3962 PSMC3 2 77 0.66961047702957 0.0800099918131192 0.770700058723066 +5728 CCDC85B 3 116 0.671978241822442 0.00821693326824047 0.772428597558787 +5843 PSMB5 2 78 0.676512263959974 0.0667397304448683 0.774159344785468 +1818 CUL1 2 78 0.676512263959974 0.0667397304448683 0.774159344785468 +3390 CDK2 4 155 0.677823372508353 -0.0298512993987368 0.774159344785468 +3649 POLR2J 4 155 0.677823372508353 -0.0298512993987368 0.774159344785468 +4799 POLR2B 4 155 0.677823372508353 -0.0298512993987368 0.774159344785468 +1804 CALM1 4 156 0.682712016063659 -0.0365434118670436 0.777424268622409 +4570 POLR2D 4 156 0.682712016063659 -0.0365434118670436 0.777424268622409 +7552 SEC13 2 79 0.683296666591893 0.0536403455422727 0.777424268622409 +1788 GTF2F1 4 157 0.68754875353766 -0.0431925370195092 0.781025875959636 +772 RPA1 2 80 0.689964563067481 0.0407074551495583 0.781025875959636 +151 SETDB1 2 80 0.689964563067481 0.0407074551495583 0.781025875959636 +5795 PSMC2 2 80 0.689964563067481 0.0407074551495583 0.781025875959636 +4469 POLR2G 4 158 0.692333522426773 -0.0497992333080548 0.782714197724565 +4019 CDCA8 2 82 0.702954600121172 0.0153244538111954 0.792712393562687 +4730 SKIL 2 82 0.702954600121172 0.0153244538111954 0.792712393562687 +615 YBX1 3 122 0.704855009795715 -0.0439727337296008 0.793851854466892 +3275 RANGAP1 2 84 0.715490349046785 -0.00944114719251843 0.803800240994625 +1354 PSMC5 2 84 0.715490349046785 -0.00944114719251843 0.803800240994625 +28 TGFBR1 4 164 0.719949925614054 -0.0885783504823259 0.805580422769966 +4332 POLR2C 4 164 0.719949925614054 -0.0885783504823259 0.805580422769966 +1334 NDC80 2 85 0.721590535642604 -0.0216017506540833 0.805580422769966 +1786 GTF2H4 2 85 0.721590535642604 -0.0216017506540833 0.805580422769966 +6638 GTF2H3 2 85 0.721590535642604 -0.0216017506540833 0.805580422769966 +226 DHX9 3 126 0.725343229982971 -0.077348527566647 0.808757701431013 +4018 INCENP 2 86 0.72758042557091 -0.0336189307106238 0.809229101757172 +6353 GTF2H2 2 86 0.72758042557091 -0.0336189307106238 0.809229101757172 +4720 ERCC2 2 88 0.739233985932631 -0.0572364032115953 0.821166519865388 +6578 ACTA1 2 89 0.744900058914621 -0.0688430980190402 0.826431408646569 +833 CASP8 2 91 0.755916971773536 -0.0916675985510222 0.837612346362725 +3119 UBQLN4 3 134 0.762973380645887 -0.141016852084409 0.842041456376351 +7144 ATP5D 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7145 ATP5E 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7146 ATP5F1 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7147 ATP5G1 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7148 ATP5I 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7151 ATP5O 2 93 0.766522043248427 -0.113992664653757 0.842041456376351 +7247 EEF2 2 94 0.771673374487262 -0.124974715381536 0.843544914267938 +3749 RPL11 2 94 0.771673374487262 -0.124974715381536 0.843544914267938 +6328 ATP5H 2 94 0.771673374487262 -0.124974715381536 0.843544914267938 +7150 ATP5L 2 94 0.771673374487262 -0.124974715381536 0.843544914267938 +7149 ATP5J 2 95 0.776725654906272 -0.135839898279018 0.847756374911252 +210 SMAD2 4 179 0.780901550503423 -0.179623649584213 0.847756374911252 +5465 PSMD11 2 96 0.78168021176687 -0.146590700238478 0.847756374911252 +1273 XPO1 3 140 0.788375889852397 -0.186311424374199 0.847756374911252 +6771 ATP5A1 2 98 0.791301504158898 -0.167758719503444 0.847756374911252 +4481 ACTB 2 99 0.795970929653815 -0.178180530833305 0.847756374911252 +253 RPL18A 2 99 0.795970929653815 -0.178180530833305 0.847756374911252 +6038 ATP5B 2 100 0.80054800848266 -0.188497155323098 0.847756374911252 +7588 SNRNP70 2 100 0.80054800848266 -0.188497155323098 0.847756374911252 +1836 POLR2A 4 187 0.808860827298371 -0.225107230199428 0.847756374911252 +7078 AASS 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +2853 SNRPA1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +5331 SNRPA 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +5748 CLP1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7201 CPSF7 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7207 CSTF3 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7227 DDX23 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7237 DNAJC8 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7322 HNRNPA0 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7323 HNRNPA1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7324 HNRNPA2B1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7325 HNRNPA3 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7327 HNRNPD 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7328 HNRNPF 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7329 HNRNPH1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7330 HNRNPH2 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7331 HNRNPL 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7332 HNRNPM 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7333 HNRNPR 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7334 HNRNPU 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7335 HNRNPUL1 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7446 PCF11 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7459 PHF5A 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7555 SF3B14 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7556 SF3B5 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7557 SF4 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7586 SNRNP200 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +7587 SNRNP40 2 103 0.813738704638071 -0.218836844469312 0.847756374911252 +6329 ATP5J2 2 104 0.81795993658245 -0.22875334948814 0.847756374911252 +5496 RBM5 2 104 0.81795993658245 -0.22875334948814 0.847756374911252 +7487 PRPF8 2 104 0.81795993658245 -0.22875334948814 0.847756374911252 +2695 RPL5 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +2087 SF3A3 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +2424 SNRPB2 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +2473 TXNL4A 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +2816 CSTF1 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +3365 CCAR1 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +4595 SF3B2 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +6192 EFTUD2 2 105 0.822095587778289 -0.238574681196091 0.847756374911252 +1486 PAPOLA 2 106 0.826147005130104 -0.248302670138155 0.848989779465498 +1691 CD2BP2 2 106 0.826147005130104 -0.248302670138155 0.848989779465498 +2422 SF3A2 2 106 0.826147005130104 -0.248302670138155 0.848989779465498 +1766 SF3A1 2 107 0.830115531036522 -0.257939094556514 0.849154878078644 +3059 PRPF4 2 107 0.830115531036522 -0.257939094556514 0.849154878078644 +3517 PABPN1 2 107 0.830115531036522 -0.257939094556514 0.849154878078644 +7326 HNRNPC 2 107 0.830115531036522 -0.257939094556514 0.849154878078644 +4297 SF3B3 2 108 0.834002502480785 -0.267485682364305 0.852153759693998 +2988 PCBP2 2 109 0.837809250178602 -0.276944113027159 0.855063902928276 +4468 SF3B4 2 110 0.841537097780771 -0.286316019357612 0.857886961394797 +665 SF3B1 2 111 0.845187361128093 -0.295602989227195 0.860624573203492 +3964 PTBP1 2 113 0.85226035524807 -0.31392825609699 0.865849928110796 +439 VIM 2 113 0.85226035524807 -0.31392825609699 0.865849928110796 +3919 RPS7 2 115 0.859038577822236 -0.33193177808228 0.870752740247085 +287 SMAD1 2 115 0.859038577822236 -0.33193177808228 0.870752740247085 +2815 CSTF2 2 117 0.865532209448699 -0.349624797847373 0.876339081530352 +2801 LSM2 2 118 0.868675436084772 -0.358358223296043 0.878524363931538 +3442 SMC1A 2 121 0.877705505480484 -0.384121445080123 0.886651541210183 +3825 PCBP1 2 122 0.88058634707523 -0.392567559856226 0.888555454288581 +677 RPS3A 2 124 0.886161358114687 -0.409254341477723 0.89317054399808 +683 BUB3 2 134 0.910596051541953 -0.488854243172278 0.916762616225081 +2675 BUB1B 2 138 0.918923494761648 -0.51904788356207 0.924103446817801 +4732 MAD2L1 2 139 0.920888734702681 -0.526460135724721 0.925036882156297 +1684 CDC20 2 142 0.926519520852894 -0.548382633000971 0.928601587191889 +4003 EEF1G 2 142 0.926519520852894 -0.548382633000971 0.928601587191889 +4955 EEF1A1 2 168 0.961736895547538 -0.721112630716305 0.962816286002699 +6187 RPS27 2 186 0.975923212389053 -0.825808759394024 0.975923212389053 diff -r 000000000000 -r 785ed8621503 test-data/netbox2010_data.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/netbox2010_data.txt Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,517 @@ +CDKN2B +EGFR +CDKN2A +MTAP +PTEN +TP53 +SEC61G +LANCL2 +DMRTA1 +IFNE +IFNA1 +ELAVL2 +IFNA8 +IFNA2 +IFNA13 +IFNA6 +KLHL9 +IFNA5 +IFNA14 +CYP27B1 +IFNA10 +IFNA16 +IFNA7 +IFNW1 +IFNA21 +CDK4 +TSPAN31 +VOPP1 +MARCH9 +VSTM2A +KIAA1797 +AGAP2 +METTL1 +TSFM +FAM119B +AVIL +MLLT3 +PTPLAD2 +IFNB1 +CTDSP2 +HLA-DRA +NF1 +XRCC6BP1 +MDM2 +OS9 +GSX2 +SLC24A2 +RPL21P44 +PDGFRA +CHIC2 +SEPT14 +NME7 +RB1 +C9orf82 +MARS +SLC35E3 +DTX3 +PLAA +CPM +MBD6 +PIP4K2C +SLC26A10 +LRRC19 +KIT +ZNF713 +B4GALNT1 +TEK +IFT74 +DDIT3 +GEFT +KIF5A +LINGO2 +C9orf11 +MOBKL2B +NUP107 +DCTN2 +FKBP9 +IFNK +PTPRD +PAOX +ERBB2 +PIK3R1 +GLI1 +CPSF6 +ARHGAP9 +PIK3CA +FRS2 +LYZ +INHBC +C9orf72 +INHBE +YEATS4 +LNX1 +LRIG3 +MDM4 +ECHS1 +KDR +KISS1 +GBAS +RAB3IP +PLEKHA6 +CCT2 +ETNK2 +MRPS17 +LRRN2 +REN +PPP1R15B +SOX13 +LRRC10 +PIK3C2B +GOLT1A +C1orf157 +CLRN3 +C10orf90 +HMGA2 +PPM1H +TYRP1 +TPD52L3 +DOCK1 +LAX1 +NPS +FAM196A +hCG_1757335 +BEST3 +FOXI2 +PRELP +TCERG1L +SNRPE +SRD5A3 +CCT6A +TMEM165 +GRIP1 +RAP1B +ATP2B4 +PSPH +EBF3 +GLRX3 +PTPRE +SLC16A7 +ZC3H11A +OPTC +ADAM12 +FIP1L1 +C9orf150 +NFASC +MKI67 +R3HDM2 +PSIP1 +NKX6-2 +C9orf93 +RCL1 +INSL6 +PPAPDC2 +CNOT2 +AK3 +ERMP1 +AVPR1A +NOTUM +KIAA2026 +CD274 +RANBP6 +KIAA1432 +MLANA +MON2 +RASL11B +CCND2 +SCFD2 +INSL4 +BNIP3 +GLDC +ATAD1 +EPHA3 +KCNV2 +MGMT +STAC3 +SNAPC3 +DUX4 +HELB +JAK2 +GLIS3 +FRG2B +LRRC66 +LRRC27 +KDM4C +CAND1 +USP15 +DCUN1D4 +SGCB +CDC37L1 +BNC2 +PPP2R2D +SRGAP1 +LMO7 +FMOD +TTC39B +FAM19A2 +FREM1 +ZDHHC21 +KLRC3 +C10orf92 +SUMF2 +STK32C +C10orf91 +C9orf123 +SPATA18 +C12orf61 +PDCD1LG2 +RFX3 +USP46 +KIAA0020 +NFIB +TDRD3 +C9orf68 +PWWP2B +CNTLN +RLN2 +SH3GL2 +IL33 +JAKMIP3 +MPDZ +C10orf93 +RNLS +KCNMB4 +INPP5A +ACER2 +VLDLR +SLC1A1 +DPYSL4 +CLOCK +CER1 +SMARCA2 +TMEM5 +DST +PHKG1 +CHCHD2 +UHRF2 +CHIT1 +IRAK3 +MYO3A +CELSR1 +PRAP1 +C22orf9 +ZNF511 +GAD2 +PANX2 +ADAMTSL1 +RIBC2 +NCRNA00168 +GTSE1 +TSPO +KIAA1644 +PIP4K2A +SLC12A6 +GALNT8 +LPHN3 +CALY +MDM1 +TMEM19 +DYRK4 +RAPGEF3 +C12orf66 +SMC1B +ZBED4 +C22orf40 +BIK +PARVG +ARID2 +PKDREJ +MSRB3 +TMEM81 +TAF1 +CRELD2 +OR6C74 +MCAT +CDKN2C +DACH1 +KCNQ1 +EDNRB +SLC6A12 +RAD51AP1 +TSPAN9 +A2BP1 +DENND4C +RP3-474I12.5 +MIOX +SBF1 +ENO1 +DIAPH3 +CCR6 +UCHL3 +DSTYK +GRAMD4 +PARP11 +TBC1D4 +RPAP3 +BTG2 +NUP50 +HDAC10 +RPS6 +WDR27 +CACNA1C +PHF21B +PIBF1 +BRD1 +RBBP5 +EFCAB4B +NMU +IL26 +TTC38 +PNPLA5 +ZFC3H1 +CERK +PNPLA3 +WIF1 +NDUFA9 +SLC2A5 +LDOC1L +ATAD2B +NTF3 +TBK1 +SLFN11 +PHACTR3 +NDFIP2 +SLAIN1 +FGF6 +PITRM1 +RASSF4 +LARP4B +HAUS6 +KLF5 +DOCK5 +DIP2C +PFKP +SLITRK1 +TUBGCP2 +UPK3A +DMRT2 +C12orf4 +C12orf56 +UNC93A +KCNA1 +ARHGAP8 +RRAGA +C6orf124 +RERE +RAB21 +PIM1 +PCDH9 +HSPA1A +CTNNA3 +DMRT3 +PIM3 +TTLL2 +PHF10 +GTSF1 +HDAC7 +APBB1IP +RNASET2 +C13orf37 +AKR1E2 +SLITRK5 +KLF12 +PTPRR +IFNG +GTPBP4 +FGF23 +PRMT8 +TYMP +SPRY2 +MAPK8IP2 +SFT2D1 +LLPH +C13orf34 +PLIN2 +DYRK2 +MAPK12 +KLHDC7B +WDR37 +SLITRK6 +KCTD12 +ADM2 +MLC1 +PDCL2 +OR10A7 +PDCD2 +XPOT +C6orf70 +TBC1D22A +T +EXOC1 +AKR1C3 +TCTE3 +SAPS2 +VDR +LARP4 +NCKAP1L +FAM116B +AKR1C1 +CNTN2 +NDUFA4L2 +AKR1C4 +BCL11A +KLHL1 +SCEL +ADORA1 +SLC45A1 +SLC2A7 +DMRT1 +SPAG6 +MYCBP2 +C12orf5 +FAM118A +A2M +FBXL3 +OMG +PLXNB2 +PSMB1 +RAB11FIP4 +RBM26 +FAM154A +ATXN10 +PCDH17 +GNS +TRABD +FBLN1 +ARSA +CLN5 +SLC48A1 +PARVB +KLF6 +PAPSS2 +COMMD6 +TBC1D15 +DACT2 +PTPRB +CHI3L1 +CDC123 +CHKB +BBS10 +TBP +C12orf64 +GPR157 +AKR1CL1 +EVI2B +DNAJC1 +MYBPH +KCNA5 +FGFR1OP +THAP2 +ADAMTS20 +IDI2 +RASSF3 +MPPED1 +TMBIM4 +ALG12 +RPS6KA2 +MOV10L1 +FAM120B +CPT1B +THOC4 +ADARB2 +ODF3B +C10orf10 +PRR18 +RNF219 +SLFN13 +ZNF479 +IL17REL +LMF2 +TTLL8 +PDE10A +C22orf26 +TTLL12 +SLFN12 +TRMU +ADAM8 +C10orf125 +AKR1C2 +NCAM1 +COMMD3 +IDI1 +ZMYND11 +FAF1 +CA6 +TUBGCP6 +TCP10 +C6orf120 +THBS2 +PPARA +P11 +FAM19A5 +PRR5 +IL22 +SULT4A1 +DIS3 +MAPK11 +ST7 +DLL1 +BRP44L +BMI1 +CTRB1 +AKAP3 +SCUBE1 +GPR31 +PTPRZ1 +SAMM50 +WNT7B +SCO2 +LEMD3 +POU4F1 +NCAPH2 +EFCAB6 +KCNA6 +RP3-402G11.5 +RABL2B +PCDH20 +LOC553158 diff -r 000000000000 -r 785ed8621503 test-data/network.sif --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/network.sif Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,152 @@ +CBL PP PIK3R1 +ADAM12 PP PIK3R1 +CBL PP PTPN11 +PIK3R1 PP PTPN11 +CBL PP KIT +PIK3R1 PP KIT +PTPN11 PP KIT +KIT PP MPDZ +CBL PP KDR +PIK3R1 STATE_CHANGE KDR +PTPN11 PP KDR +TBP PP RB1 +PIK3R1 PP RB1 +TBP PP TAF1 +RB1 PP TAF1 +PIK3R1 PP ERBB2 +PTPN11 PP ERBB2 +CBL PP SPRY2 +PTPN11 PP SPRY2 +CBL PP FRS2 +PIK3R1 STATE_CHANGE FRS2 +PTPN11 PP FRS2 +KDR PP FRS2 +RB1 PP CDK6 +CDK6 PP CDKN2A +PIK3R1 PP TEK +PTPN11 PP TEK +PIK3R1 PP GAB1 +PTPN11 PP GAB1 +KIT STATE_CHANGE GAB1 +KDR STATE_CHANGE GAB1 +FRS2 PP GAB1 +CBL PP PDGFRA +PIK3R1 PP PDGFRA +PTPN11 PP PDGFRA +CBL STATE_CHANGE IFNG +PTPN11 STATE_CHANGE IFNG +PDGFRA INTERACTS_WITH IFNG +TBP PP TP53 +TP53 PP HSPA1A +PIK3R1 IN_SAME_COMPONENT VLDLR +CBL CO_CONTROL_INDEPENDENT_SIMILAR DOCK1 +PIK3R1 CO_CONTROL_INDEPENDENT_SIMILAR DOCK1 +RB1 PP RBBP5 +TBP IN_SAME_COMPONENT SNAPC3 +RB1 PP SNAPC3 +RB1 PP MDM4 +TP53 PP MDM4 +TBP PP MDM2 +RB1 PP MDM2 +TAF1 PP MDM2 +CDKN2A PP MDM2 +TP53 PP MDM2 +MDM4 PP MDM2 +CBL PP EGFR +PIK3R1 PP EGFR +PTPN11 PP EGFR +ERBB2 PP EGFR +GAB1 PP EGFR +IFNG CO_CONTROL_INDEPENDENT_ANTI EGFR +CBL STATE_CHANGE JAK2 +PIK3R1 PP JAK2 +PTPN11 PP JAK2 +KIT PP JAK2 +ERBB2 PP JAK2 +GAB1 STATE_CHANGE JAK2 +IFNG IN_SAME_COMPONENT JAK2 +EGFR PP JAK2 +CBL PP CRK +PIK3R1 PP CRK +KIT PP CRK +KDR PP CRK +FRS2 PP CRK +TEK STATE_CHANGE CRK +GAB1 PP CRK +PDGFRA PP CRK +DOCK1 PP CRK +EGFR PP CRK +TP53 PP KLF6 +KCNA5 PP PTPRE +PTPRD PP PTPRE +ERBB2 PP PIK3C2B +EGFR PP PIK3C2B +TEK PP PTPRB +PIK3R1 CO_CONTROL_INDEPENDENT_ANTI PTEN +GAB1 CO_CONTROL_INDEPENDENT_SIMILAR PTEN +TP53 PP PTEN +CBL IN_SAME_COMPONENT SH3GL2 +EGFR IN_SAME_COMPONENT SH3GL2 +CBL STATE_CHANGE FGF23 +CDK6 PP CDKN2C +CDKN2A PP CDKN2C +TP53 PP CDKN2C +CNTN2 IN_SAME_COMPONENT NCAM1 +RB1 PP CDK4 +CDK6 IN_SAME_COMPONENT CDK4 +CDKN2A PP CDK4 +CDKN2C PP CDK4 +NUP50 STATE_CHANGE THOC4 +PIK3R1 STATE_CHANGE MAPK11 +KDR STATE_CHANGE MAPK11 +NUP50 IN_SAME_COMPONENT NUP107 +THOC4 STATE_CHANGE NUP107 +DCTN2 IN_SAME_COMPONENT TUBGCP2 +PIK3R1 PP IFNAR1 +PTPN11 PP IFNAR1 +IFNW1 PP IFNAR1 +IFNA2 PP IFNAR1 +IFNB1 PP IFNAR1 +IFNG METABOLIC_CATALYSIS IFNAR1 +PTPN11 METABOLIC_CATALYSIS A2M +RB1 PP BNC2 +TP53 PP EPHA3 +CRK PP EPHA3 +PIM1 PP EPHA3 +RB1 PP CCND2 +CDK6 PP CCND2 +CDK4 PP CCND2 +CDK4 PP CDKN2B +PPARA PP STAC3 +IFNAR1 PP IFNA1 +CBL CO_CONTROL_INDEPENDENT_SIMILAR PIK3CA +PIK3R1 PP PIK3CA +PTPN11 IN_SAME_COMPONENT PIK3CA +KDR STATE_CHANGE PIK3CA +FRS2 STATE_CHANGE PIK3CA +TEK STATE_CHANGE PIK3CA +GAB1 IN_SAME_COMPONENT PIK3CA +VLDLR IN_SAME_COMPONENT PIK3CA +DOCK1 CO_CONTROL_INDEPENDENT_SIMILAR PIK3CA +EGFR IN_SAME_COMPONENT PIK3CA +JAK2 CO_CONTROL_INDEPENDENT_SIMILAR PIK3CA +CRK CO_CONTROL_INDEPENDENT_SIMILAR PIK3CA +PTEN CO_CONTROL_INDEPENDENT_ANTI PIK3CA +MAPK11 STATE_CHANGE PIK3CA +A2M PP LYZ +CBL IN_SAME_COMPONENT HLA-DRA +PTPN11 STATE_CHANGE HLA-DRA +IFNG METABOLIC_CATALYSIS HLA-DRA +JAK2 CO_CONTROL_INDEPENDENT_SIMILAR HLA-DRA +CRK PP AVIL +CCT2 IN_SAME_COMPONENT CCT6A +DCTN2 IN_SAME_COMPONENT FGFR1OP +TUBGCP2 IN_SAME_COMPONENT FGFR1OP +NUP50 STATE_CHANGE SNRPE +THOC4 IN_SAME_COMPONENT SNRPE +NUP107 STATE_CHANGE SNRPE +DCTN2 IN_SAME_COMPONENT TUBGCP6 +TUBGCP2 IN_SAME_COMPONENT TUBGCP6 +FGFR1OP IN_SAME_COMPONENT TUBGCP6 +PIK3R1 IN_SAME_COMPONENT AGAP2 +PIK3CA IN_SAME_COMPONENT AGAP2 diff -r 000000000000 -r 785ed8621503 test-data/network_plot.pdf Binary file test-data/network_plot.pdf has changed diff -r 000000000000 -r 785ed8621503 test-data/nodeType.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/nodeType.txt Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,280 @@ +CDKN2B candidate +EGFR candidate +CDKN2A candidate +MTAP candidate +PTEN candidate +TP53 candidate +SEC61G candidate +IFNA1 candidate +ELAVL2 candidate +IFNA8 candidate +IFNA2 candidate +KLHL9 candidate +IFNA5 candidate +CYP27B1 candidate +IFNW1 candidate +CDK4 candidate +AGAP2 candidate +METTL1 candidate +AVIL candidate +MLLT3 candidate +IFNB1 candidate +CTDSP2 candidate +HLA-DRA candidate +NF1 candidate +XRCC6BP1 candidate +MDM2 candidate +OS9 candidate +PDGFRA candidate +CHIC2 candidate +NME7 candidate +RB1 candidate +C9orf82 candidate +MARS candidate +DTX3 candidate +PLAA candidate +CPM candidate +MBD6 candidate +KIT candidate +TEK candidate +DDIT3 candidate +KIF5A candidate +MOBKL2B candidate +NUP107 candidate +DCTN2 candidate +PTPRD candidate +PAOX candidate +ERBB2 candidate +PIK3R1 candidate +GLI1 candidate +CPSF6 candidate +ARHGAP9 candidate +PIK3CA candidate +FRS2 candidate +LYZ candidate +INHBC candidate +INHBE candidate +YEATS4 candidate +LNX1 candidate +MDM4 candidate +ECHS1 candidate +KDR candidate +KISS1 candidate +RAB3IP candidate +CCT2 candidate +ETNK2 candidate +REN candidate +PPP1R15B candidate +SOX13 candidate +PIK3C2B candidate +HMGA2 candidate +TYRP1 candidate +TPD52L3 candidate +DOCK1 candidate +LAX1 candidate +PRELP candidate +SNRPE candidate +CCT6A candidate +GRIP1 candidate +RAP1B candidate +ATP2B4 candidate +PTPRE candidate +ZC3H11A candidate +OPTC candidate +ADAM12 candidate +FIP1L1 candidate +NFASC candidate +MKI67 candidate +R3HDM2 candidate +PSIP1 candidate +CNOT2 candidate +AVPR1A candidate +KIAA2026 candidate +CD274 candidate +RASL11B candidate +CCND2 candidate +BNIP3 candidate +GLDC candidate +EPHA3 candidate +KCNV2 candidate +MGMT candidate +STAC3 candidate +SNAPC3 candidate +HELB candidate +JAK2 candidate +GLIS3 candidate +CAND1 candidate +SGCB candidate +CDC37L1 candidate +BNC2 candidate +PPP2R2D candidate +SRGAP1 candidate +LMO7 candidate +FMOD candidate +ZDHHC21 candidate +KLRC3 candidate +SUMF2 candidate +RFX3 candidate +KIAA0020 candidate +NFIB candidate +RLN2 candidate +SH3GL2 candidate +IL33 candidate +MPDZ candidate +INPP5A candidate +VLDLR candidate +SLC1A1 candidate +DPYSL4 candidate +CLOCK candidate +CER1 candidate +SMARCA2 candidate +DST candidate +PHKG1 candidate +UHRF2 candidate +IRAK3 candidate +MYO3A candidate +CELSR1 candidate +C22orf9 candidate +GAD2 candidate +PANX2 candidate +RIBC2 candidate +TSPO candidate +SLC12A6 candidate +TMEM19 candidate +RAPGEF3 candidate +SMC1B candidate +BIK candidate +PARVG candidate +ARID2 candidate +TAF1 candidate +CRELD2 candidate +CDKN2C candidate +DACH1 candidate +KCNQ1 candidate +EDNRB candidate +SLC6A12 candidate +RAD51AP1 candidate +SBF1 candidate +ENO1 candidate +DIAPH3 candidate +CCR6 candidate +UCHL3 candidate +PARP11 candidate +TBC1D4 candidate +BTG2 candidate +NUP50 candidate +HDAC10 candidate +RPS6 candidate +CACNA1C candidate +BRD1 candidate +RBBP5 candidate +EFCAB4B candidate +NMU candidate +WIF1 candidate +NDUFA9 candidate +NTF3 candidate +TBK1 candidate +PHACTR3 candidate +NDFIP2 candidate +FGF6 candidate +RASSF4 candidate +KLF5 candidate +PFKP candidate +TUBGCP2 candidate +UPK3A candidate +KCNA1 candidate +ARHGAP8 candidate +RRAGA candidate +RERE candidate +PIM1 candidate +HSPA1A candidate +CTNNA3 candidate +PIM3 candidate +PHF10 candidate +HDAC7 candidate +APBB1IP candidate +KLF12 candidate +PTPRR candidate +IFNG candidate +GTPBP4 candidate +FGF23 candidate +PRMT8 candidate +TYMP candidate +SPRY2 candidate +MAPK8IP2 candidate +C13orf34 candidate +DYRK2 candidate +MAPK12 candidate +WDR37 candidate +MLC1 candidate +PDCL2 candidate +PDCD2 candidate +XPOT candidate +EXOC1 candidate +AKR1C3 candidate +SAPS2 candidate +VDR candidate +CNTN2 candidate +NDUFA4L2 candidate +AKR1C4 candidate +BCL11A candidate +KLHL1 candidate +SCEL candidate +ADORA1 candidate +SPAG6 candidate +MYCBP2 candidate +A2M candidate +OMG candidate +PLXNB2 candidate +PSMB1 candidate +RAB11FIP4 candidate +ATXN10 candidate +PCDH17 candidate +FBLN1 candidate +ARSA candidate +PARVB candidate +KLF6 candidate +COMMD6 candidate +PTPRB candidate +TBP candidate +DNAJC1 candidate +MYBPH candidate +KCNA5 candidate +FGFR1OP candidate +RPS6KA2 candidate +FAM120B candidate +CPT1B candidate +THOC4 candidate +C10orf10 candidate +PDE10A candidate +NCAM1 candidate +COMMD3 candidate +ZMYND11 candidate +FAF1 candidate +CA6 candidate +TUBGCP6 candidate +TCP10 candidate +THBS2 candidate +PPARA candidate +IL22 candidate +DIS3 candidate +MAPK11 candidate +ST7 candidate +DLL1 candidate +BRP44L candidate +BMI1 candidate +CTRB1 candidate +AKAP3 candidate +SCUBE1 candidate +PTPRZ1 candidate +SAMM50 candidate +WNT7B candidate +LEMD3 candidate +POU4F1 candidate +RABL2B candidate +CRK linker +IFNAR1 linker +CBL linker +GAB1 linker +CDK6 linker +PTPN11 linker diff -r 000000000000 -r 785ed8621503 tool_conf.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_conf.xml Wed Aug 24 08:27:40 2022 +0000 @@ -0,0 +1,24 @@ + + + + + + + + + + + + + +https://cran.r-project.org/src/contrib/igraph_1.3.0.tar.gz + + +https://www.bioconductor.org/packages/release/bioc/src/contrib/netboxr_1.6. +0.tar.gz + + + + + +