Association of gene expression with WGD

1 Set up package environment

We first want to install all of the packages used in this analysis. We use the package renv as a way to manage package versions. The following code was initially run to set up the package library.

install.packages("renv")
library(renv)

renv::init(bare = TRUE)
install.packages("BiocManager")
library(BiocManager)
install.packages(c("ggplot2", "magrittr", "knitr", "kableExtra", "ggrepel",
                   "stringr", "circlize", "ComplexHeatmap", "metap","limma",
                   "devtools", "rmarkdown", "formatR", "bitops", "caTools"),
                 repo = BiocManager::repositories())
devtools::install_github("montilab/hypeR")
renv::snapshot()

If you are attempting to reproduce this analysis, you can 1) install/load renv, 2) copy/paste the renv.lock file into your current working directory and 3) run the renv::restore() command to automatically install all of the packages with the same version.

# Make sure the 'renv.lock' file is in your current working directory.
install.packages("renv")
library(renv)
renv::restore()

2 Load in scripts and R packages

First, R packages will be loaded and scripts will be sourced.

source("lm_utils.R")
source("lm_expression_with_cnv.R")
library(ggplot2)
library(magrittr)
library(knitr)
library(kableExtra)
library(ggrepel)
library(hypeR)
library(stringr)
library(circlize)
library(ComplexHeatmap)
library(metap)
library(limma)
knitr::opts_chunk$set(fig.width=12, fig.height=8)

dir.create("Enrichment_Results", showWarnings = FALSE)
dir.create("LM_Results", showWarnings = FALSE)

We need to read in the expression matrix, ABSOLUTE calls, and copy ratio matrix.The expression matrix was obtained from (and was gzipped):

http://api.gdc.cancer.gov/data/3586c0da-64d0-4b74-a449-5ff4d9136611

The ABSOLUTE purity/ploidy estimates were obtained from:

http://api.gdc.cancer.gov/data/4f277128-f793-4354-a13d-30cc7fe9f6b5

The copy ratio matrix was obtained by running GISTIC2.0 on the seg file obtained from:

http://api.gdc.cancer.gov/data/00a32f7a-c85f-4f86-850d-be53973cbc4d

Clinical data with tumor type information was obtained from:

http://api.gdc.cancer.gov/data/4f277128-f793-4354-a13d-30cc7fe9f6b5

# Read in and process RNA-seq data
expression = read.table(gzfile("../../Data/EBPlusPlusAdjustPANCAN_IlluminaHiSeq_RNASeqV2.geneExp.tsv.gz"), header=TRUE, stringsAsFactors = FALSE, sep = "\t", check.names = FALSE, row.names = 1)
expression.gene.name = t(as.data.frame(strsplit(rownames(expression), "\\|")))
i = expression.gene.name[,1] == '?' | expression.gene.name[,1] == "SLC35E2"
expression = log2(expression[!i,] + 1)
rownames(expression) = expression.gene.name[!i,1]
colnames(expression) = substring(colnames(expression), 1, 15)

# Read in ABSOLUTE data
absolute = read.table("../../../Mutation/Data/TCGA_mastercalls.abs_tables_JSedit.fixed.txt", header = TRUE, stringsAsFactors = FALSE, sep = "\t", row.names = 1)
absolute$WGD_Status = factor(ifelse(absolute$Genome.doublings > 0, "Yes", "No"), levels = c("No", "Yes"))

# Read in and process CNV ratios from GISTIC
cnv = read.table(gzfile("../../Data/all_data_by_genes_whitelisted.tsv.gz"), sep = "\t", header = TRUE, stringsAsFactors = FALSE, check.names = FALSE, row.names = 1)
cnv.info = cnv[,1:2]
cnv = as.matrix(cnv[,-(1:2)])
colnames(cnv) = substring(colnames(cnv), 1, 15)
chrom = str_match(cnv.info[,2], "^(\\w+)[pq]")
cnv.info = cbind(cnv.info, Chrom=factor(chrom[,2], levels=c(1:22, "X", "Y")))

# Read in clinical information and get tumor type info
clin = read.table(gzfile("../../Data/clinical_PANCAN_patient_with_followup.tsv.gz"), sep = "\t", header = TRUE, stringsAsFactors = FALSE, quote = "", row.names = 2)
clin = subset(clin, !is.na(acronym))

# Get initial overlap of tumors between 3 assays
tumor.overlap = intersect(intersect(colnames(expression), rownames(absolute)), colnames(cnv))

# Subset to primary tumors
tumor.overlap = tumor.overlap[substring(tumor.overlap, 14, 15) == "01"]

# Suset to tumors with annotated tumor type
tumor.overlap = tumor.overlap[substring(tumor.overlap, 1, 12) %in% rownames(clin)]

# Get gene overlap between gene and cnv assays and expression across at least 10% of samples
gene.overlap.initial = intersect(rownames(expression), rownames(cnv))
percent.absent = rowSums(is.na(expression[,tumor.overlap]) | expression[,tumor.overlap] == 0) / length(tumor.overlap)
gene.overlap = intersect(rownames(expression)[percent.absent < 0.90], rownames(cnv))

# Subset assays
cnv.overlap = cnv[gene.overlap,tumor.overlap]
expression.overlap = expression[gene.overlap,tumor.overlap]
absolute.overlap = absolute[tumor.overlap,]
cnv.info.overlap = cnv.info[gene.overlap,]
tumor.type = clin[substring(colnames(expression.overlap), 1, 12), "acronym"]

rm(expression)
rm(cnv)

3 Association of expression with WGS status

We will iterate through all tumor types and identify genes that are differentially expressed with respect to WGD status while controlling for purity and local copy number.

tumor.type.ids = unique(tumor.type)
result = list()
for(i in tumor.type.ids) {
  cat("Analyzing", i, "...\n")
  
  # Subset to tumors within a tumor type and to genes consistently expressed
  ix = tumor.type == i
  covars = absolute.overlap[ix,c("WGD_Status", "purity")]
  
  temp.res = lm_expression_with_cnv(expression.overlap[,ix],
                                    cnv.overlap[,ix],
                                    covars)
  
  # Save to file
  fn = paste0("LM_Results/LM_Exp_tilde_CNV_WGD_Purity_", i, ".txt.gz")
  write.table(temp.res, gzfile(fn), row.names=FALSE, sep="\t", quote = FALSE)
  
  result[[i]] = temp.res
}

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4 Generate Heatmaps

A heatmap will be generated for the top 50 up- and down-regulated genes using the ComplexHeatmap package. Each tumor type is plotted on a separate tab.

n.show = 50

# Set up column color bars
purity_col = colorRamp2(c(0, 25, 50, 75, 100)/100, c("blue", "green", "yellow", "orange", "red"))

# Set up row color bars
set.seed(123)
cnv.col = sample(colors(distinct = TRUE), 24)
names(cnv.col) = levels(cnv.info.overlap$Chrom)

for(i in names(result)) {
  ix = tumor.type == i
  deg.list = c()
  up = subset(result[[i]], WGD_Status_FDR < 0.05 & WGD_Status_Estimate > 0)
  if(nrow(up) > 0) {
    up.o = up[order(up$WGD_Status_Estimate, decreasing = TRUE),]
    deg.list = c(deg.list, head(as.character(up.o[,1]), n.show))
  }
  
  down = subset(result[[i]], WGD_Status_FDR < 0.05 & WGD_Status_Estimate < 0)
  if(nrow(down) > 0) {
    down.o = down[order(down$WGD_Status_Estimate, decreasing = FALSE),]
    deg.list = c(deg.list, head(as.character(down.o[,1]), n.show))
  }
  
  if(length(deg.list) == 0) {
    next()
  }
  # Subset and scale data
  deg.data = t(scale(t(expression.overlap[deg.list, ix])))
  deg.data[deg.data < -2] = -2
  deg.data[deg.data > 2] = 2

  column_ha = HeatmapAnnotation(df = absolute.overlap[ix,c("WGD_Status", 
                                                           "purity")],
                              col = list(purity = purity_col,
                                          WGD_Status = c("Yes" = "black",
                                                        "No" = "White")))

  row_ha = rowAnnotation(df=cnv.info.overlap[rownames(deg.data),3,drop=F],
                       col=list(Chrom=cnv.col))
  
  cat(paste0('## ', i, ' \n\n'))
  draw(Heatmap(deg.data, 
          show_column_names = FALSE,
          top_annotation = column_ha,
          left_annotation = row_ha,
          row_names_gp = gpar(fontsize=5),
          use_raster = TRUE))
  cat(' \n\n')
}

4.1 ACC

4.2 BLCA

4.3 UCEC

4.4 HNSC

4.5 PRAD

4.6 KIRP

4.7 PAAD

4.8 SARC

4.9 CESC

4.10 COAD

4.11 LUSC

4.12 READ

4.13 KIRC

4.14 LIHC

4.15 BRCA

4.16 UCS

4.17 GBM

4.18 KICH

4.19 THCA

4.20 LGG

4.21 LUAD

4.22 MESO

4.23 PCPG

4.24 TGCT

4.25 UVM

4.26 THYM

4.27 CHOL

4.28 OV

4.29 ESCA

4.30 STAD

5 Perform functional enrichment

Functional enrichment using the hypeR package will identify classes of genes enriched in genes associated with WGD status in each tumor type. We will use Hallmark gene sets (H) from MSigDB. Tables will be saved to the Enrichment_Results folder. We will examine genes with FDR < 0.05 with respect to WGD status in each tumor type. Functional enrichment is performed separately for up and down-regulated genes within each tumor type.

# Examine hallmark genes only
hallmark = msigdb_gsets(species="Homo sapiens", category="H")
gs = hallmark

# Cycle through each tumor type, perform enrichment, and save tables
for(i in names(result)) {
  ix = tumor.type == i
  up = as.character(subset(result[[i]], WGD_Status_FDR < 0.05 & WGD_Status_Estimate > 0)$Gene)
  if(length(up) > 0) {
    up.enrich = hypeR(up, gs)  
    hyp_to_table(up.enrich,
               file.path("Enrichment_Results",
                         paste0(i, "_Up.txt")))
  }

  down = as.character(subset(result[[i]], WGD_Status_FDR < 0.05 & WGD_Status_Estimate < 0)$Gene)
  if(length(down) > 0) {
    down.enrich = hypeR(down, gs)  
    hyp_to_table(down.enrich,
               file.path("Enrichment_Results",
                         paste0(i, "_Down.txt")))
  }
  
  
  cat(paste0('## ', i, ' {.tabset} \n\n'))
  cat(paste0('### Up \n\n'))
  
  d = subset(up.enrich$data, fdr < 0.1)
  print(kableExtra::kable(d, style = 'html', row.names = FALSE) %>% kable_styling(bootstrap_options = "striped") %>% scroll_box(width = "100%"))
  
  cat('\n\n')
  cat(paste0('### Down \n\n'))
  
  d = subset(down.enrich$data, fdr < 0.1)
  print(kableExtra::kable(d, style = 'html', row.names = FALSE) %>% kable_styling(bootstrap_options = "striped") %>% scroll_box(width = "100%"))

  cat('\n\n')
  cat('\n\n')
}

5.1 ACC

5.1.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	3e-04	0.015	106	200	6	23467	CKS2,HELLS,ILF3,LIG1,RFC3,SMC4

5.1.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	476	200	56	23467	C2,CCL13,CCL2,CCL5,CCR1,CCR2,CCR5,CD2,CD247,CD3D,CD3E,CD3G,CD4,CD40LG,CD7,CD74,CD8A,CD8B,CRTAM,CSF1,CXCL9,CXCR3,GPR65,GZMA,HCLS1,HLA-DMA,HLA-DOA,HLA-DRA,HLA-E,IL10,IL12RB1,IL15,IL16,IL2RA,IL2RB,IL2RG,IRF4,IRF8,ITGAL,ITGB2,ITK,KLRD1,LCK,LCP2,LTB,NCF4,NLRP3,PRF1,PTPRC,SIT1,SPI1,STAB1,TRAT1,WARS,WAS,ZAP70
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	476	200	33	23467	APOL6,CCL2,CCL5,CD38,CD69,CD74,CFH,CIITA,CMKLR1,CSF2RB,CXCL9,FGL2,FPR1,GPR18,GZMA,HLA-B,HLA-DMA,IL10RA,IL15,IL15RA,IL2RB,IRF1,IRF4,IRF8,LCP2,MX2,SECTM1,SELP,SERPING1,SLAMF7,TXNIP,VAMP8,WARS
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	476	200	32	23467	BEST1,CCL2,CCL5,CCR7,CD14,CD48,CD69,CMKLR1,CSF1,CSF3R,CXCL9,CXCR6,CYBB,FPR1,GNA15,GPR132,IL10,IL10RA,IL15,IL15RA,IL2RB,IRF1,LCK,LCP2,MARCO,NLRP3,PIK3R5,PTAFR,PTGER4,RNF144B,SLAMF1,STAB1
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	476	200	25	23467	C1QA,C1QC,C2,CCL5,CD40LG,CFH,CR1,CSRP1,FCER1G,GNGT2,GZMA,GZMK,HNF4A,IRF1,ITGAM,LCK,LCP2,PIK3CG,PIK3R5,PLEK,PRSS36,SERPINA1,SERPING1,SH2B3,WAS
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	476	87	16	23467	A2M,CCR1,CD14,CD38,CSF1,CSF2RB,CSF3R,CXCL9,IL12RB1,IL13RA1,IL15RA,IL2RA,IL2RG,IRF1,LTB,PIK3R5
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	2.0e-07	476	200	19	23467	BATF3,BCL2L1,CD48,CSF1,CST7,FGL2,GPR65,IL10,IL10RA,IL2RA,IL2RB,IRF4,IRF8,LTB,PRNP,RHOH,SELP,SYNGR2,TNFRSF18
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	2.0e-07	476	200	19	23467	AMMECR1,CD37,CFH,CMKLR1,DOCK2,F13A1,FCER1G,FUCA1,IKZF1,IL10RA,IL2RG,IRF8,ITGB2,LAPTM5,LCP1,MALL,MMP11,PDCD1LG2,PLAU
HALLMARK_APOPTOSIS	5.5e-06	3.4e-05	476	161	14	23467	BCL2L1,BMF,CD14,CD2,CD38,CD69,DPYD,GNA15,GPX3,IRF1,PLCB2,PRF1,TXNIP,XIAP
HALLMARK_COAGULATION	2.6e-05	1.4e-04	476	138	12	23467	A2M,C1QA,C2,CFH,CSRP1,HNF4A,MMP11,PLAU,PLEK,SERPINA1,SERPING1,THBD
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	5.6e-05	2.8e-04	476	49	7	23467	FES,FTL,GPX3,IPCEF1,MBP,MPO,PRNP
HALLMARK_TNFA_SIGNALING_VIA_NFKB	8.3e-04	3.8e-03	476	200	12	23467	CCL2,CCL5,CD69,CSF1,EGR2,IL15RA,IRF1,MSC,PLAU,PLEK,PTGER4,TNIP1
HALLMARK_INTERFERON_ALPHA_RESPONSE	3.6e-03	1.5e-02	476	97	7	23467	CD74,CSF1,IL15,IRF1,NUB1,TXNIP,WARS
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	2.1e-02	8.2e-02	476	200	9	23467	ANPEP,COL12A1,CXCL12,FUCA1,IL15,LAMA3,LAMC2,MYLK,NNMT

5.2 BLCA

5.2.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	1766	200	123	23467	ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BUB1B,CCNB2,CCNE1,CDC20,CDC25A,CDCA3,CDCA8,CDK1,CDK4,CDKN1B,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DCK,DCLRE1B,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,DSCC1,E2F8,ESPL1,EZH2,GINS1,GINS4,H2AFX,H2AFZ,HELLS,HMGB2,HMGB3,HMMR,ILF3,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LIG1,LMNB1,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MSH2,MXD3,MYBL2,NASP,NCAPD2,NUP107,NUP205,PCNA,PLK1,PLK4,POLA2,POLD1,POLD3,POLE,POP7,PPM1D,PPP1R8,PRIM2,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD21,RAD51AP1,RAD51C,RANBP1,RBBP7,RFC1,RFC2,RFC3,RNASEH2A,RPA1,RPA3,RRM2,SHMT1,SLBP,SMC1A,SMC3,SMC4,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,TACC3,TCF19,TIMELESS,TIPIN,TK1,TMPO,TOP2A,TRIP13,TUBG1,UBE2S,UBE2T,UNG,USP1,WDR90,ZW10
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	1766	200	99	23467	AURKA,AURKB,BIRC5,BRCA2,BUB1,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN1B,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F1,E2F2,ESPL1,EXO1,EZH2,FANCC,FBXO5,GINS2,H2AFV,H2AFX,H2AFZ,HMGB3,HMGN2,HMMR,ILF3,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MTF2,MYBL2,NASP,NDC80,NEK2,NUSAP1,ODF2,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,RACGAP1,RAD21,RAD23B,RAD54L,RBL1,SFPQ,SLC38A1,SMARCC1,SMC1A,SMC2,SMC4,SQLE,STIL,STMN1,SUV39H1,TACC3,TMPO,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	1766	199	54	23467	ALMS1,ANLN,ARF6,ARFIP2,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPF,CENPJ,CEP250,CEP72,CKAP5,CNTROB,DLGAP5,DYNLL2,ECT2,EPB41,ESPL1,FARP1,FBXO5,HDAC6,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF3C,KIF4A,KNTC1,LLGL1,LMNB1,MYH10,NDC80,NEK2,NUSAP1,PIF1,PLK1,PRC1,RACGAP1,RALBP1,RFC1,SAC3D1,SASS6,SMC1A,SMC3,SMC4,TOP2A,TPX2,TTK
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	1766	200	43	23467	ACP1,CBX3,CCNA2,CDC20,CDC45,CDK2,CDK4,CSTF2,DHX15,GLO1,GNL3,H2AFZ,HDAC2,HNRNPA2B1,HNRNPR,ILF2,KPNA2,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,NCBP1,PCNA,PRPS2,PSMC4,PSMD3,RAD23B,RANBP1,RFC4,RNPS1,RRM1,SMARCC1,SNRPA,SNRPA1,SNRPB2,TCP1,TRIM28,UBA2,USP1,VBP1,XPOT
HALLMARK_SPERMATOGENESIS	2.0e-07	2.2e-06	1766	135	29	23467	ACRV1,ALOX15,AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,CLGN,CLPB,COIL,DBF4,EZH2,GMCL1,KIF2C,LDHC,MLF1,NAA11,NCAPH,NEK2,PARP2,PEBP1,RFC4,SNAP91,STRBP,TEKT2,TOPBP1,TTK,YBX2
HALLMARK_MTORC1_SIGNALING	2.3e-06	1.9e-05	1766	200	35	23467	ACLY,AURKA,BUB1,CACYBP,CCNF,CDC25A,DHCR7,DHFR,EBP,EEF1E1,ELOVL6,GMPS,HMGCR,HMGCS1,INSIG1,MCM2,MCM4,NUFIP1,NUP205,PHGDH,PLK1,PSAT1,PSMC4,RPA1,RPN1,RRM2,SCD,SLC37A4,SQLE,TM7SF2,TMEM97,TOMM40,TRIB3,TUBG1,UNG
HALLMARK_MYC_TARGETS_V2	3.8e-06	2.7e-05	1766	58	16	23467	CBX3,CDK4,EXOSC5,GNL3,LAS1L,MCM4,MCM5,MPHOSPH10,PLK1,PLK4,RRP12,SLC19A1,SLC29A2,TCOF1,TMEM97,UNG
HALLMARK_DNA_REPAIR	8.5e-04	5.3e-03	1766	150	23	23467	ARL6IP1,CCNO,FEN1,GTF3C5,LIG1,PCNA,POLA1,POLA2,POLD1,POLD3,PRIM1,RAD51,RFC2,RFC3,RFC4,RFC5,RPA3,SAC3D1,SNAPC4,SSRP1,STX3,UPF3B,ZWINT
HALLMARK_GLYCOLYSIS	1.1e-03	6.0e-03	1766	200	28	23467	AURKA,CASP6,CDK1,CENPA,CLDN3,CLDN9,CYB5A,DEPDC1,FBP2,FKBP4,GALK2,GFPT1,HMMR,HS2ST1,KDELR3,KIF20A,LDHC,NANP,NASP,NSDHL,PAXIP1,PGM2,PHKA2,PKP2,PSMC4,SLC25A10,SLC37A4,STMN1
HALLMARK_UV_RESPONSE_UP	1.7e-03	8.0e-03	1766	158	23	23467	ALAS1,CCNE1,CDC34,CDK2,CEBPG,CHRNA5,CLCN2,CYP1A1,EPCAM,FEN1,FKBP4,GGH,H2AFX,HMOX1,KLHDC3,MAPK8IP2,MARK2,PARP2,PPAT,PRKACA,RFC4,RPN1,TYRO3
HALLMARK_PEROXISOME	1.9e-03	8.0e-03	1766	104	17	23467	ABCD3,ACOX1,CRABP1,CRAT,DIO1,ESR2,HSD11B2,ISOC1,MSH2,PEX11A,PEX13,SIAH1,SLC25A17,SLC25A19,SLC27A2,SMARCC1,TOP2A
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.9e-03	8.0e-03	1766	113	18	23467	ALDH18A1,CEBPG,CKS1B,CXXC1,DKC1,EIF2AK3,EIF4EBP1,EXOSC10,EXOSC2,EXOSC5,H2AFX,KDELR3,KHSRP,LSM4,NFYA,PSAT1,WFS1,XPOT
HALLMARK_CHOLESTEROL_HOMEOSTASIS	3.3e-03	1.3e-02	1766	74	13	23467	ACAT2,DHCR7,EBP,FASN,FDFT1,HMGCR,HMGCS1,NSDHL,SCD,SQLE,TM7SF2,TMEM97,TRIB3
HALLMARK_ESTROGEN_RESPONSE_LATE	2.8e-02	9.3e-02	1766	200	23	23467	CDC20,CDC6,DHCR7,DYNLT3,FARP1,FDFT1,FKBP4,GINS2,IL17RB,KIF20A,LLGL2,MAPT,MYB,NXT1,PLAC1,PLK4,RNASEH2A,SLC27A2,SLC29A1,STIL,TOP2A,WFS1,XRCC3
HALLMARK_XENOBIOTIC_METABOLISM	2.8e-02	9.3e-02	1766	200	23	23467	ACOX1,ACOX3,ACP1,ALAS1,BPHL,CASP6,CYB5A,CYP1A1,CYP1A2,FBLN1,GCKR,HES6,HMOX1,LONP1,MCCC2,MPP2,MTHFD1,NDRG2,PGRMC1,PMM1,PYCR1,TMEM97,TTPA

5.2.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	3012	200	128	23467	ADAR,ARL4A,B2M,BATF2,BST2,BTG1,C1R,C1S,CASP1,CASP4,CASP8,CCL5,CD274,CD40,CD69,CD74,CD86,CDKN1A,CFB,CFH,CIITA,CMKLR1,DDX58,DDX60,DHX58,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GPR18,GZMA,HERC6,HIF1A,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,IDO1,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT1,IFIT2,IFIT3,IFITM2,IFITM3,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF4,IRF7,IRF8,IRF9,ISG20,ITGB7,JAK2,KLRK1,LAP3,LATS2,LCP2,LGALS3BP,LY6E,LYSMD2,MVP,MX1,NAMPT,NFKB1,NLRC5,NMI,NOD1,OAS2,OASL,OGFR,PARP12,PARP14,PDE4B,PFKP,PLA2G4A,PML,PNP,PSMB10,PSMB8,PSMB9,PSME1,PSME2,PTPN1,PTPN2,PTPN6,RBCK1,RIPK1,RNF31,RTP4,SAMD9L,SECTM1,SERPING1,SLAMF7,SLC25A28,SOCS1,SOCS3,SOD2,SP110,ST8SIA4,STAT1,STAT2,STAT3,STAT4,TAP1,TAPBP,TNFSF10,TRIM14,TRIM21,TXNIP,UBE2L6,VAMP5,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	3012	200	120	23467	ACHE,B2M,BCL10,C2,CCL22,CCL4,CCL5,CCND2,CCND3,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD47,CD7,CD74,CD79A,CD86,CD8A,CD8B,CFP,CRTAM,CSF1,CTSS,CXCR3,DEGS1,EIF3D,ELANE,ETS1,FAS,FASLG,FCGR2B,FGR,FLNA,GCNT1,GPR65,GZMA,GZMB,HCLS1,HIF1A,HLA-A,HLA-DMA,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,IFNG,IFNGR1,IFNGR2,IGSF6,IKBKB,IL12RB1,IL15,IL16,IL18,IL18RAP,IL2RA,IL2RB,IL2RG,IL4R,IL7,INHBB,IRF4,IRF7,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LTB,LY86,LYN,MAP4K1,NCF4,NCK1,NLRP3,NOS2,PF4,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,RPS3A,RPS9,SIT1,SOCS1,SPI1,SRGN,ST8SIA4,STAB1,STAT1,STAT4,TAP1,TAP2,TAPBP,TGFB1,TGFB2,TIMP1,TLR1,TLR2,TLR3,TLR6,TRAT1,WARS,WAS,ZAP70
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	3012	97	71	23467	ADAR,B2M,BATF2,BST2,C1S,CASP1,CASP8,CCRL2,CD47,CD74,CNP,CSF1,DDX60,DHX58,EPSTI1,GMPR,HERC6,HLA-C,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFITM1,IFITM2,IFITM3,IL15,IL4R,IL7,IRF1,IRF7,IRF9,ISG20,LAMP3,LAP3,LGALS3BP,LPAR6,LY6E,MOV10,MX1,NCOA7,NMI,NUB1,OASL,OGFR,PARP12,PARP14,PARP9,PROCR,PSMB8,PSMB9,PSME1,PSME2,RNF31,RTP4,SAMD9,SAMD9L,SLC25A28,SP110,STAT2,TAP1,TMEM140,TRIM14,TRIM21,TXNIP,UBA7,UBE2L6,WARS
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	3012	200	91	23467	ADM,ADORA2B,AXL,BEST1,BST2,C3AR1,CALCRL,CCL20,CCL22,CCL5,CCRL2,CD14,CD40,CD48,CD69,CD82,CDKN1A,CHST2,CMKLR1,CSF1,CSF3R,CX3CL1,CXCL6,CXCR6,CYBB,EBI3,EDN1,EMP3,F3,FPR1,GABBR1,GPR132,GPR183,HIF1A,HRH1,IFITM1,IFNAR1,IFNGR2,IL10RA,IL15,IL15RA,IL18,IL18RAP,IL2RB,IL4R,IL7R,IRF1,IRF7,KCNA3,KCNJ2,LAMP3,LCK,LCP2,LPAR1,LTA,LY6E,LYN,MEFV,MMP14,MYC,NAMPT,NFKB1,NLRP3,NMI,NMUR1,OSMR,PCDH7,PDE4B,PDPN,PIK3R5,PTAFR,PTGER2,PTGIR,RHOG,RNF144B,RTP4,SCARF1,SCN1B,SLAMF1,SLC7A1,STAB1,TACR1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFRSF9,TNFSF10,TNFSF9,TPBG
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	3012	200	84	23467	BCL2A1,BIRC2,BIRC3,BMP2,BTG1,CCL20,CCL4,CCL5,CCND1,CCRL2,CD44,CD69,CDKN1A,CEBPB,CFLAR,CSF1,CXCL1,CXCL6,DDX58,DNAJB4,DRAM1,DUSP1,EDN1,EIF1,ETS2,F3,FOS,GADD45A,GADD45B,GPR183,ID2,IFIH1,IFIT2,IFNGR2,IL15RA,IL18,IL7R,IRF1,IRS2,JAG1,JUNB,KLF2,KYNU,LAMB3,LITAF,MAP2K3,MCL1,MSC,MYC,NAMPT,NFAT5,NFE2L2,NFKB1,NFKB2,NFKBIE,NINJ1,PDE4B,PDLIM5,PFKFB3,PLAU,PLEK,PLK2,PMEPA1,PNRC1,RELB,RNF19B,SAT1,SERPINB2,SERPINB8,SGK1,SMAD3,SOCS3,SOD2,SPSB1,TANK,TAP1,TLR2,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TRAF1,TSC22D1,ZC3H12A
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	3012	200	80	23467	ANXA5,ATOX1,C1QA,C1QC,C1R,C1S,C2,C3,CALM1,CASP1,CASP10,CASP4,CASP5,CCL5,CD40LG,CD59,CEBPB,CFB,CFH,CLU,CP,CR1,CSRP1,CTSB,CTSC,CTSD,CTSO,CTSS,CXCL1,DGKG,DOCK10,ERAP2,F10,F3,FCER1G,FCN1,GNAI2,GNB4,GNG2,GNGT2,GZMA,GZMB,GZMK,IRF1,IRF7,ITGAM,JAK2,KYNU,L3MBTL4,LAP3,LCK,LCP2,LGMN,LIPA,LRP1,LYN,MMP12,MMP13,MMP14,NOTCH4,PDP1,PFN1,PIK3CG,PIK3R5,PLA2G4A,PLEK,PRCP,PRSS36,PSMB9,RHOG,SERPINB2,SERPING1,SH2B3,SPOCK2,TFPI2,TIMP1,USP15,WAS,XPNPEP1,ZEB1
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	3012	200	78	23467	ABAT,ABCC5,ALOX15B,APP,BAK1,BLCAP,BMP2,BTG1,CASP1,CCND2,CCND3,CD81,CD82,CDKN1A,CLCA2,CTSD,DDB2,DDIT4,DEF6,DGKA,DRAM1,EPHA2,ERCC5,FAS,FGF13,FOS,GADD45A,GM2A,HINT1,IFI30,INHBB,ISCU,ITGB4,JAG2,KRT17,LDHB,LRMP,MXD4,NINJ1,NOTCH1,OSGIN1,PDGFA,PHLDA3,PITPNC1,PLK2,PLK3,POLH,PRKAB1,PRMT2,PROCR,PVT1,RAP2B,RHBDF2,RNF19B,RPS12,RPS27L,S100A10,SAT1,SERPINB5,SERTAD3,SLC35D1,SLC7A11,SOCS1,STOM,TAP1,TAX1BP3,TGFB1,TM4SF1,TM7SF3,TNFSF9,TSC22D1,TXNIP,VDR,VWA5A,XPC,ZFP36L1,ZMAT3,ZNF365
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	3012	200	76	23467	ABCB1,AGER,AHNAK,ARL4A,BATF3,BMP2,CAPN3,CCND2,CCND3,CCR4,CD44,CD48,CD79B,CD81,CD86,CDC42SE2,CKAP4,COL6A1,CSF1,CST7,CTLA4,DHRS3,ECM1,EMP1,ENPP1,EOMES,FAH,FGL2,FLT3LG,FURIN,GABARAPL1,GADD45B,GPR65,GSTO1,HIPK2,ICOS,IFITM3,IFNGR1,IGF1R,IL10RA,IL2RA,IL2RB,IL4R,IRF4,IRF8,ITGAV,ITIH5,LRRC8C,LTB,MAP6,MAPKAPK2,MYC,MYO1C,NT5E,P4HA1,PLEC,PNP,PRNP,PTGER2,PTH1R,RHOH,RNH1,SCN9A,SHE,SOCS1,SPP1,SWAP70,SYT11,TGM2,TNFRSF18,TNFRSF4,TNFRSF8,TNFRSF9,TNFSF10,TNFSF11,TRAF1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	3012	200	74	23467	ABCB1,ALDH1A3,ANKH,ANXA10,BIRC3,BMP2,C3AR1,CCL20,CCND2,CD37,CDADC1,CFB,CFH,CLEC4A,CMKLR1,CTSS,CXCR4,DOCK2,EMP1,ENG,ETS1,ETV5,F13A1,FBXO4,FCER1G,FGF9,GLRX,GNG11,GYPC,HKDC1,HSD11B1,ID2,IKZF1,IL10RA,IL2RG,IL33,IL7R,IRF8,ITGA2,ITGB2,LAPTM5,LAT2,LY96,MALL,MAP4K1,MMP10,MTMR10,NIN,PDCD1LG2,PECAM1,PIGR,PLAU,PRDM1,PSMB8,SCN1B,SDCCAG8,SERPINA3,SLPI,SPARCL1,SPON1,SPP1,SPRY2,ST6GAL1,TFPI,TLR8,TMEM100,TMEM176A,TMEM176B,TRAF1,TRIB2,TSPAN1,TSPAN7,VWA5A,ZNF277
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	3012	87	39	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CD44,CSF1,CSF3R,CXCL1,EBI3,FAS,IFNAR1,IFNGR1,IFNGR2,IL10RB,IL12RB1,IL15RA,IL2RA,IL2RG,IL4R,IL7,INHBE,IRF1,IRF9,LEPR,LTB,OSMR,PF4,PIK3R5,PTPN1,PTPN2,SOCS1,SOCS3,STAT1,STAT2,STAT3,TGFB1,TLR2,TNFRSF1A
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	3012	200	65	23467	ACTA2,CD44,CD59,COL7A1,CXCL1,CXCL12,CXCL6,DCN,DST,ECM1,EFEMP2,EMP3,FAS,FBLN5,FGF2,FLNA,FOXC2,FSTL3,FZD8,GADD45A,GADD45B,GLIPR1,GPC1,HTRA1,ID2,IGFBP2,IGFBP4,IL15,IL32,ITGA2,ITGAV,LAMA3,LAMC1,LAMC2,LOXL1,LRP1,MMP1,MMP14,MMP2,MSX1,MXRA5,MYL9,NT5E,PCOLCE,PDLIM4,PMEPA1,PTHLH,SAT1,SCG2,SERPINE2,SLIT3,SNAI2,SPOCK1,SPP1,TFPI2,TGFB1,TGM2,THBS1,TIMP1,TPM2,TPM4,VCAN,VIM,WIPF1,WNT5A
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	3012	161	56	23467	ADD1,ANKH,ANXA1,APP,BCL10,BCL2L2,BIRC3,BMP2,CASP1,CASP4,CASP8,CAV1,CCNA1,CCND1,CCND2,CD14,CD2,CD44,CD69,CDKN1A,CFLAR,CLU,CYLD,DCN,DPYD,EMP1,ETF1,FAS,FASLG,GADD45A,GADD45B,GPX1,GSN,HSPB1,IFITM3,IFNGR1,IGFBP6,IL18,IRF1,ISG20,LEF1,MCL1,MMP2,PAK1,PLCB2,PRF1,RNASEL,SAT1,SMAD7,SOD2,TAP1,TGFB2,TIMP1,TNFSF10,TXNIP,VDAC2
HALLMARK_COAGULATION	0.0e+00	0.0e+00	3012	138	49	23467	A2M,ACOX2,ANXA1,C1QA,C1R,C1S,C2,C3,C8G,CAPN2,CFB,CFD,CFH,CFI,CLU,CSRP1,CTSB,CTSO,F10,F3,FURIN,GNG12,GSN,HTRA1,ISCU,ITGA2,LGMN,LRP1,MMP1,MMP10,MMP14,MMP2,MMP7,MSRB2,P2RY1,PECAM1,PF4,PLAU,PLEK,PROC,PRSS23,RAC1,RAPGEF3,SERPINB2,SERPING1,TFPI2,THBS1,TIMP1,VWF
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	3012	200	62	23467	ACTB,ACTN1,ADAMTS5,ALOX15B,ARPC2,CAP1,CD209,CD274,CD34,CD86,CDH3,CLDN15,CLDN5,CNN2,COL17A1,CX3CL1,DSC3,FLNC,FSCN1,GAMT,GNAI1,GNAI2,GTF2F1,ICAM2,ITGA10,ITGA2,ITGA3,ITGB4,JAM3,LAMA3,LAMB3,LAMC2,LAYN,LIMA1,MAPK11,MMP2,MSN,MYL9,NEGR1,NEXN,NF2,NFASC,PARVA,PBX2,PECAM1,PFN1,PTEN,PTPRC,RAC2,RRAS,RSU1,SDC3,SHC1,SIRPA,SKAP2,SYK,THBS3,TRAF1,VASP,VCAN,VWF,ZYX
HALLMARK_TGF_BETA_SIGNALING	0.0e+00	0.0e+00	3012	54	24	23467	ACVR1,BMP2,CDK9,ENG,FKBP1A,FURIN,HIPK2,ID1,ID2,ID3,IFNGR2,JUNB,NCOR2,PMEPA1,RAB31,SKI,SMAD1,SMAD3,SMAD7,TGFB1,TGFBR1,THBS1,UBE2D3,WWTR1
HALLMARK_HYPOXIA	4.0e-07	1.1e-06	3012	200	52	23467	ADM,ADORA2B,ALDOA,ALDOC,AMPD3,ANXA2,BTG1,CA12,CAV1,CDKN1A,CHST2,CP,CXCR4,DCN,DDIT4,DUSP1,ETS1,EXT1,F3,FOS,GAPDH,GBE1,GCNT2,GLRX,GPC1,GPI,GYS1,HK1,IRS2,ISG20,LXN,NDST2,NR3C1,P4HA1,PAM,PFKFB3,PFKP,PGF,PGM1,PLAC8,PNRC1,PPARGC1A,PRDX5,SDC3,SLC2A1,TES,TGFB3,TGM2,TMEM45A,TPBG,TPST2,XPNPEP1
HALLMARK_UV_RESPONSE_DN	8.8e-06	2.6e-05	3012	144	38	23467	ABCC1,ADORA2B,ANXA2,ATP2B4,ATXN1,CAV1,CDC42BPA,CELF2,DUSP1,F3,FBLN5,GCNT1,GRK5,ID1,IGF1R,IGFBP5,KIT,LAMC1,LPAR1,MAP1B,MYC,NFKB1,NR3C1,PDLIM5,PIK3CD,PTEN,RND3,RUNX1,SCHIP1,SLC7A1,SMAD3,SMAD7,SNAI2,SPOP,SYNE1,TFPI,TGFBR2,WDR37
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.4e-05	4.0e-05	3012	105	30	23467	ACTR3,AKT1S1,AP2M1,ARPC3,CDKN1A,CXCR4,DUSP3,FASLG,IL2RG,IRAK4,ITPR2,LCK,MAP2K3,MKNK1,NCK1,NOD1,PFN1,PRKCB,PTEN,RAC1,RALB,RIPK1,RIT1,RPS6KA1,SLA,SLC2A1,STAT2,THEM4,TNFRSF1A,UBE2D3
HALLMARK_ANGIOGENESIS	1.6e-05	4.2e-05	3012	36	15	23467	APP,CCND2,CXCL6,ITGAV,JAG1,JAG2,MSX1,PDGFA,PF4,PGLYRP1,PRG2,SERPINA5,SPP1,TIMP1,VCAN
HALLMARK_XENOBIOTIC_METABOLISM	1.1e-04	2.7e-04	3012	200	45	23467	ABCC2,ABCC3,ABCD2,ACOX2,AKR1C2,ALDH2,ALDH3A1,ALDH9A1,ATOH8,BCAR1,CBR1,CES1,CFB,CNDP2,CYP2S1,DHRS1,EPHA2,ETS2,F10,FAH,FAS,FMO3,GABARAPL1,GCNT2,GSTO1,HSD11B1,ID2,IGF1,IGFBP4,IRF8,KYNU,NINJ1,NMT1,PAPSS2,PDLIM5,PSMB10,SERTAD1,SLC12A4,SLC35D1,SLC46A3,SMOX,TGFB2,TMEM176B,TNFRSF1A,VNN1
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.3e-04	3.2e-04	3012	42	15	23467	CCND2,DLL1,FZD8,GNAI1,HDAC11,HEY2,JAG1,JAG2,LEF1,MYC,NCOR2,NCSTN,NOTCH1,NOTCH4,NUMB
HALLMARK_ESTROGEN_RESPONSE_LATE	2.1e-04	4.9e-04	3012	200	44	23467	ACOX2,ALDH3B1,AMFR,ATP2B4,BAG1,CA12,CAV1,CCNA1,CCND1,CD44,CXCL12,CXCL14,DNAJC1,FABP5,FOS,FOXC1,ID2,IGFBP4,ISG20,JAK1,JAK2,KLK10,KLK11,LAMC2,MOCS2,NBL1,NCOR2,PAPSS2,PGR,PRSS23,PTPN6,RAB31,RET,RPS6KA2,SERPINA3,SERPINA5,SGK1,SLC24A3,ST6GALNAC2,TFF1,TFF3,TFPI2,TPBG,TPSAB1
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	2.7e-04	5.8e-04	3012	49	16	23467	ABCC1,ATOX1,FTL,GLRX,IPCEF1,JUNB,LSP1,MBP,MSRA,PDLIM1,PFKP,PRNP,SOD2,SRXN1,TXN,TXNRD2
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.5e-03	2.9e-03	3012	200	41	23467	ABAT,ABLIM1,ALDH3B1,AMFR,BAG1,BCL11B,CA12,CBFA2T3,CCND1,CD44,CELSR1,CXCL12,DHRS3,FOS,FOXC1,GFRA1,IGF1R,IGFBP4,INHBB,JAK2,KLK10,KRT15,MYC,NBL1,NCOR2,OLFML3,PAPSS2,PGR,PRSS23,RAB31,RET,RHOD,RPS6KA2,SLC24A3,SLC2A1,TFF1,TFF3,TGM2,THSD4,TPBG,TSKU
HALLMARK_KRAS_SIGNALING_DN	1.5e-03	2.9e-03	3012	200	41	23467	ABCB11,AKR1B10,CAMK1D,CCNA1,CD40LG,CHST2,CLDN16,CPEB3,CYP39A1,EDN1,FGGY,GAMT,HTR1B,IFI44L,IFNG,IGFBP2,KCNMB1,KRT15,KRT5,LFNG,MAST3,MEFV,MTHFR,MX1,NPHS1,NUDT11,P2RX6,PDCD1,PDE6B,PRODH,PTPRJ,RYR1,RYR2,SERPINB2,SGK1,SLC16A7,SLC25A23,SYNPO,TG,TGFB2,TGM1
HALLMARK_MYOGENESIS	1.5e-03	2.9e-03	3012	200	41	23467	ABLIM1,ACHE,APP,BAG1,BDKRB2,CACNA1H,CDKN1A,CFD,CLU,COX7A1,CRYAB,EIF4A2,FGF2,FKBP1B,FLII,FXYD1,GADD45B,GJA5,GSN,HSPB2,IGF1,IGFBP7,ITGB4,LSP1,MEF2C,MEF2D,MYL3,MYO1C,MYOM1,MYOM2,NOTCH1,PDLIM7,PRNP,RIT1,RYR1,SCHIP1,SPDEF,ST5,TGFB1,TPM2,WWTR1
HALLMARK_ANDROGEN_RESPONSE	1.6e-03	3.0e-03	3012	100	24	23467	ACTN1,ALDH1A3,ANKH,B2M,CCND1,CCND3,CDK6,DNAJB9,ELL2,HERC3,ITGAV,MAF,MYL12A,NCOA4,PDLIM5,PMEPA1,PTK2B,SAT1,SGK1,SPCS3,SPDEF,SRF,TNFAIP8,TSC22D1
HALLMARK_APICAL_SURFACE	2.7e-03	4.9e-03	3012	44	13	23467	AKAP7,APP,CD160,CX3CL1,GHRL,HSPB1,IL2RB,IL2RG,LYN,MDGA1,RHCG,SCUBE1,SULF2
HALLMARK_HEDGEHOG_SIGNALING	4.2e-03	7.3e-03	3012	36	11	23467	ACHE,CDK6,CELSR1,CRMP1,ETS2,GLI1,HEY2,PML,RTN1,SCG2,SHH
HALLMARK_HEME_METABOLISM	4.8e-03	7.8e-03	3012	200	39	23467	ABCB6,ADD1,ADIPOR1,AGPAT4,ANK1,ARL2BP,BLVRA,C3,CAST,CCND3,CTSB,ELL2,ERMAP,FBXO7,FBXO9,GYPC,GYPE,HBB,LMO2,LRP10,MAP2K3,NCOA4,NFE2L1,NR3C1,OPTN,RBM38,RBM5,RIOK3,SDCBP,SIDT2,SLC2A1,SLC7A11,SMOX,SPTA1,TMEM9B,TRIM58,UROD,USP15,YPEL5
HALLMARK_MTORC1_SIGNALING	4.8e-03	7.8e-03	3012	200	39	23467	ACTR3,ALDOA,ATP6V1D,CDKN1A,CFP,CORO1A,CTSC,CXCR4,DDIT4,ETF1,FGL2,GAPDH,GBE1,GLRX,GPI,IFI30,IGFBP5,ITGB2,LGMN,MAP2K3,NAMPT,NMT1,P4HA1,PGM1,PITPNB,PNP,PPA1,PPIA,RIT1,SKAP2,SLA,SLC2A1,SLC7A11,SRD5A1,STARD4,TES,TUBA4A,UBE2D3,WARS
HALLMARK_UV_RESPONSE_UP	5.6e-03	8.8e-03	3012	158	32	23467	ABCB1,ALDOA,APOM,BAK1,BMP2,BTG1,CCND3,CLTB,CNP,CYB5R1,FOS,FURIN,GLS,GRINA,HLA-F,HTR7,IGFBP2,IRF1,JUNB,LYN,MMP14,MSX1,NXF1,PLCL1,PTPRD,RAB27A,RET,SOD2,SULT1A1,TAP1,TUBA4A,UROD

5.3 DLBC

5.3.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	1766	200	123	23467	ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BUB1B,CCNB2,CCNE1,CDC20,CDC25A,CDCA3,CDCA8,CDK1,CDK4,CDKN1B,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DCK,DCLRE1B,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,DSCC1,E2F8,ESPL1,EZH2,GINS1,GINS4,H2AFX,H2AFZ,HELLS,HMGB2,HMGB3,HMMR,ILF3,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LIG1,LMNB1,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MSH2,MXD3,MYBL2,NASP,NCAPD2,NUP107,NUP205,PCNA,PLK1,PLK4,POLA2,POLD1,POLD3,POLE,POP7,PPM1D,PPP1R8,PRIM2,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD21,RAD51AP1,RAD51C,RANBP1,RBBP7,RFC1,RFC2,RFC3,RNASEH2A,RPA1,RPA3,RRM2,SHMT1,SLBP,SMC1A,SMC3,SMC4,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,TACC3,TCF19,TIMELESS,TIPIN,TK1,TMPO,TOP2A,TRIP13,TUBG1,UBE2S,UBE2T,UNG,USP1,WDR90,ZW10
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	1766	200	99	23467	AURKA,AURKB,BIRC5,BRCA2,BUB1,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN1B,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F1,E2F2,ESPL1,EXO1,EZH2,FANCC,FBXO5,GINS2,H2AFV,H2AFX,H2AFZ,HMGB3,HMGN2,HMMR,ILF3,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MTF2,MYBL2,NASP,NDC80,NEK2,NUSAP1,ODF2,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,RACGAP1,RAD21,RAD23B,RAD54L,RBL1,SFPQ,SLC38A1,SMARCC1,SMC1A,SMC2,SMC4,SQLE,STIL,STMN1,SUV39H1,TACC3,TMPO,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	1766	199	54	23467	ALMS1,ANLN,ARF6,ARFIP2,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPF,CENPJ,CEP250,CEP72,CKAP5,CNTROB,DLGAP5,DYNLL2,ECT2,EPB41,ESPL1,FARP1,FBXO5,HDAC6,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF3C,KIF4A,KNTC1,LLGL1,LMNB1,MYH10,NDC80,NEK2,NUSAP1,PIF1,PLK1,PRC1,RACGAP1,RALBP1,RFC1,SAC3D1,SASS6,SMC1A,SMC3,SMC4,TOP2A,TPX2,TTK
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	1766	200	43	23467	ACP1,CBX3,CCNA2,CDC20,CDC45,CDK2,CDK4,CSTF2,DHX15,GLO1,GNL3,H2AFZ,HDAC2,HNRNPA2B1,HNRNPR,ILF2,KPNA2,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,NCBP1,PCNA,PRPS2,PSMC4,PSMD3,RAD23B,RANBP1,RFC4,RNPS1,RRM1,SMARCC1,SNRPA,SNRPA1,SNRPB2,TCP1,TRIM28,UBA2,USP1,VBP1,XPOT
HALLMARK_SPERMATOGENESIS	2.0e-07	2.2e-06	1766	135	29	23467	ACRV1,ALOX15,AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,CLGN,CLPB,COIL,DBF4,EZH2,GMCL1,KIF2C,LDHC,MLF1,NAA11,NCAPH,NEK2,PARP2,PEBP1,RFC4,SNAP91,STRBP,TEKT2,TOPBP1,TTK,YBX2
HALLMARK_MTORC1_SIGNALING	2.3e-06	1.9e-05	1766	200	35	23467	ACLY,AURKA,BUB1,CACYBP,CCNF,CDC25A,DHCR7,DHFR,EBP,EEF1E1,ELOVL6,GMPS,HMGCR,HMGCS1,INSIG1,MCM2,MCM4,NUFIP1,NUP205,PHGDH,PLK1,PSAT1,PSMC4,RPA1,RPN1,RRM2,SCD,SLC37A4,SQLE,TM7SF2,TMEM97,TOMM40,TRIB3,TUBG1,UNG
HALLMARK_MYC_TARGETS_V2	3.8e-06	2.7e-05	1766	58	16	23467	CBX3,CDK4,EXOSC5,GNL3,LAS1L,MCM4,MCM5,MPHOSPH10,PLK1,PLK4,RRP12,SLC19A1,SLC29A2,TCOF1,TMEM97,UNG
HALLMARK_DNA_REPAIR	8.5e-04	5.3e-03	1766	150	23	23467	ARL6IP1,CCNO,FEN1,GTF3C5,LIG1,PCNA,POLA1,POLA2,POLD1,POLD3,PRIM1,RAD51,RFC2,RFC3,RFC4,RFC5,RPA3,SAC3D1,SNAPC4,SSRP1,STX3,UPF3B,ZWINT
HALLMARK_GLYCOLYSIS	1.1e-03	6.0e-03	1766	200	28	23467	AURKA,CASP6,CDK1,CENPA,CLDN3,CLDN9,CYB5A,DEPDC1,FBP2,FKBP4,GALK2,GFPT1,HMMR,HS2ST1,KDELR3,KIF20A,LDHC,NANP,NASP,NSDHL,PAXIP1,PGM2,PHKA2,PKP2,PSMC4,SLC25A10,SLC37A4,STMN1
HALLMARK_UV_RESPONSE_UP	1.7e-03	8.0e-03	1766	158	23	23467	ALAS1,CCNE1,CDC34,CDK2,CEBPG,CHRNA5,CLCN2,CYP1A1,EPCAM,FEN1,FKBP4,GGH,H2AFX,HMOX1,KLHDC3,MAPK8IP2,MARK2,PARP2,PPAT,PRKACA,RFC4,RPN1,TYRO3
HALLMARK_PEROXISOME	1.9e-03	8.0e-03	1766	104	17	23467	ABCD3,ACOX1,CRABP1,CRAT,DIO1,ESR2,HSD11B2,ISOC1,MSH2,PEX11A,PEX13,SIAH1,SLC25A17,SLC25A19,SLC27A2,SMARCC1,TOP2A
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.9e-03	8.0e-03	1766	113	18	23467	ALDH18A1,CEBPG,CKS1B,CXXC1,DKC1,EIF2AK3,EIF4EBP1,EXOSC10,EXOSC2,EXOSC5,H2AFX,KDELR3,KHSRP,LSM4,NFYA,PSAT1,WFS1,XPOT
HALLMARK_CHOLESTEROL_HOMEOSTASIS	3.3e-03	1.3e-02	1766	74	13	23467	ACAT2,DHCR7,EBP,FASN,FDFT1,HMGCR,HMGCS1,NSDHL,SCD,SQLE,TM7SF2,TMEM97,TRIB3
HALLMARK_ESTROGEN_RESPONSE_LATE	2.8e-02	9.3e-02	1766	200	23	23467	CDC20,CDC6,DHCR7,DYNLT3,FARP1,FDFT1,FKBP4,GINS2,IL17RB,KIF20A,LLGL2,MAPT,MYB,NXT1,PLAC1,PLK4,RNASEH2A,SLC27A2,SLC29A1,STIL,TOP2A,WFS1,XRCC3
HALLMARK_XENOBIOTIC_METABOLISM	2.8e-02	9.3e-02	1766	200	23	23467	ACOX1,ACOX3,ACP1,ALAS1,BPHL,CASP6,CYB5A,CYP1A1,CYP1A2,FBLN1,GCKR,HES6,HMOX1,LONP1,MCCC2,MPP2,MTHFD1,NDRG2,PGRMC1,PMM1,PYCR1,TMEM97,TTPA

5.3.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	3012	200	128	23467	ADAR,ARL4A,B2M,BATF2,BST2,BTG1,C1R,C1S,CASP1,CASP4,CASP8,CCL5,CD274,CD40,CD69,CD74,CD86,CDKN1A,CFB,CFH,CIITA,CMKLR1,DDX58,DDX60,DHX58,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GPR18,GZMA,HERC6,HIF1A,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,IDO1,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT1,IFIT2,IFIT3,IFITM2,IFITM3,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF4,IRF7,IRF8,IRF9,ISG20,ITGB7,JAK2,KLRK1,LAP3,LATS2,LCP2,LGALS3BP,LY6E,LYSMD2,MVP,MX1,NAMPT,NFKB1,NLRC5,NMI,NOD1,OAS2,OASL,OGFR,PARP12,PARP14,PDE4B,PFKP,PLA2G4A,PML,PNP,PSMB10,PSMB8,PSMB9,PSME1,PSME2,PTPN1,PTPN2,PTPN6,RBCK1,RIPK1,RNF31,RTP4,SAMD9L,SECTM1,SERPING1,SLAMF7,SLC25A28,SOCS1,SOCS3,SOD2,SP110,ST8SIA4,STAT1,STAT2,STAT3,STAT4,TAP1,TAPBP,TNFSF10,TRIM14,TRIM21,TXNIP,UBE2L6,VAMP5,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	3012	200	120	23467	ACHE,B2M,BCL10,C2,CCL22,CCL4,CCL5,CCND2,CCND3,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD47,CD7,CD74,CD79A,CD86,CD8A,CD8B,CFP,CRTAM,CSF1,CTSS,CXCR3,DEGS1,EIF3D,ELANE,ETS1,FAS,FASLG,FCGR2B,FGR,FLNA,GCNT1,GPR65,GZMA,GZMB,HCLS1,HIF1A,HLA-A,HLA-DMA,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,IFNG,IFNGR1,IFNGR2,IGSF6,IKBKB,IL12RB1,IL15,IL16,IL18,IL18RAP,IL2RA,IL2RB,IL2RG,IL4R,IL7,INHBB,IRF4,IRF7,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LTB,LY86,LYN,MAP4K1,NCF4,NCK1,NLRP3,NOS2,PF4,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,RPS3A,RPS9,SIT1,SOCS1,SPI1,SRGN,ST8SIA4,STAB1,STAT1,STAT4,TAP1,TAP2,TAPBP,TGFB1,TGFB2,TIMP1,TLR1,TLR2,TLR3,TLR6,TRAT1,WARS,WAS,ZAP70
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	3012	97	71	23467	ADAR,B2M,BATF2,BST2,C1S,CASP1,CASP8,CCRL2,CD47,CD74,CNP,CSF1,DDX60,DHX58,EPSTI1,GMPR,HERC6,HLA-C,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFITM1,IFITM2,IFITM3,IL15,IL4R,IL7,IRF1,IRF7,IRF9,ISG20,LAMP3,LAP3,LGALS3BP,LPAR6,LY6E,MOV10,MX1,NCOA7,NMI,NUB1,OASL,OGFR,PARP12,PARP14,PARP9,PROCR,PSMB8,PSMB9,PSME1,PSME2,RNF31,RTP4,SAMD9,SAMD9L,SLC25A28,SP110,STAT2,TAP1,TMEM140,TRIM14,TRIM21,TXNIP,UBA7,UBE2L6,WARS
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	3012	200	91	23467	ADM,ADORA2B,AXL,BEST1,BST2,C3AR1,CALCRL,CCL20,CCL22,CCL5,CCRL2,CD14,CD40,CD48,CD69,CD82,CDKN1A,CHST2,CMKLR1,CSF1,CSF3R,CX3CL1,CXCL6,CXCR6,CYBB,EBI3,EDN1,EMP3,F3,FPR1,GABBR1,GPR132,GPR183,HIF1A,HRH1,IFITM1,IFNAR1,IFNGR2,IL10RA,IL15,IL15RA,IL18,IL18RAP,IL2RB,IL4R,IL7R,IRF1,IRF7,KCNA3,KCNJ2,LAMP3,LCK,LCP2,LPAR1,LTA,LY6E,LYN,MEFV,MMP14,MYC,NAMPT,NFKB1,NLRP3,NMI,NMUR1,OSMR,PCDH7,PDE4B,PDPN,PIK3R5,PTAFR,PTGER2,PTGIR,RHOG,RNF144B,RTP4,SCARF1,SCN1B,SLAMF1,SLC7A1,STAB1,TACR1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFRSF9,TNFSF10,TNFSF9,TPBG
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	3012	200	84	23467	BCL2A1,BIRC2,BIRC3,BMP2,BTG1,CCL20,CCL4,CCL5,CCND1,CCRL2,CD44,CD69,CDKN1A,CEBPB,CFLAR,CSF1,CXCL1,CXCL6,DDX58,DNAJB4,DRAM1,DUSP1,EDN1,EIF1,ETS2,F3,FOS,GADD45A,GADD45B,GPR183,ID2,IFIH1,IFIT2,IFNGR2,IL15RA,IL18,IL7R,IRF1,IRS2,JAG1,JUNB,KLF2,KYNU,LAMB3,LITAF,MAP2K3,MCL1,MSC,MYC,NAMPT,NFAT5,NFE2L2,NFKB1,NFKB2,NFKBIE,NINJ1,PDE4B,PDLIM5,PFKFB3,PLAU,PLEK,PLK2,PMEPA1,PNRC1,RELB,RNF19B,SAT1,SERPINB2,SERPINB8,SGK1,SMAD3,SOCS3,SOD2,SPSB1,TANK,TAP1,TLR2,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TRAF1,TSC22D1,ZC3H12A
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	3012	200	80	23467	ANXA5,ATOX1,C1QA,C1QC,C1R,C1S,C2,C3,CALM1,CASP1,CASP10,CASP4,CASP5,CCL5,CD40LG,CD59,CEBPB,CFB,CFH,CLU,CP,CR1,CSRP1,CTSB,CTSC,CTSD,CTSO,CTSS,CXCL1,DGKG,DOCK10,ERAP2,F10,F3,FCER1G,FCN1,GNAI2,GNB4,GNG2,GNGT2,GZMA,GZMB,GZMK,IRF1,IRF7,ITGAM,JAK2,KYNU,L3MBTL4,LAP3,LCK,LCP2,LGMN,LIPA,LRP1,LYN,MMP12,MMP13,MMP14,NOTCH4,PDP1,PFN1,PIK3CG,PIK3R5,PLA2G4A,PLEK,PRCP,PRSS36,PSMB9,RHOG,SERPINB2,SERPING1,SH2B3,SPOCK2,TFPI2,TIMP1,USP15,WAS,XPNPEP1,ZEB1
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	3012	200	78	23467	ABAT,ABCC5,ALOX15B,APP,BAK1,BLCAP,BMP2,BTG1,CASP1,CCND2,CCND3,CD81,CD82,CDKN1A,CLCA2,CTSD,DDB2,DDIT4,DEF6,DGKA,DRAM1,EPHA2,ERCC5,FAS,FGF13,FOS,GADD45A,GM2A,HINT1,IFI30,INHBB,ISCU,ITGB4,JAG2,KRT17,LDHB,LRMP,MXD4,NINJ1,NOTCH1,OSGIN1,PDGFA,PHLDA3,PITPNC1,PLK2,PLK3,POLH,PRKAB1,PRMT2,PROCR,PVT1,RAP2B,RHBDF2,RNF19B,RPS12,RPS27L,S100A10,SAT1,SERPINB5,SERTAD3,SLC35D1,SLC7A11,SOCS1,STOM,TAP1,TAX1BP3,TGFB1,TM4SF1,TM7SF3,TNFSF9,TSC22D1,TXNIP,VDR,VWA5A,XPC,ZFP36L1,ZMAT3,ZNF365
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	3012	200	76	23467	ABCB1,AGER,AHNAK,ARL4A,BATF3,BMP2,CAPN3,CCND2,CCND3,CCR4,CD44,CD48,CD79B,CD81,CD86,CDC42SE2,CKAP4,COL6A1,CSF1,CST7,CTLA4,DHRS3,ECM1,EMP1,ENPP1,EOMES,FAH,FGL2,FLT3LG,FURIN,GABARAPL1,GADD45B,GPR65,GSTO1,HIPK2,ICOS,IFITM3,IFNGR1,IGF1R,IL10RA,IL2RA,IL2RB,IL4R,IRF4,IRF8,ITGAV,ITIH5,LRRC8C,LTB,MAP6,MAPKAPK2,MYC,MYO1C,NT5E,P4HA1,PLEC,PNP,PRNP,PTGER2,PTH1R,RHOH,RNH1,SCN9A,SHE,SOCS1,SPP1,SWAP70,SYT11,TGM2,TNFRSF18,TNFRSF4,TNFRSF8,TNFRSF9,TNFSF10,TNFSF11,TRAF1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	3012	200	74	23467	ABCB1,ALDH1A3,ANKH,ANXA10,BIRC3,BMP2,C3AR1,CCL20,CCND2,CD37,CDADC1,CFB,CFH,CLEC4A,CMKLR1,CTSS,CXCR4,DOCK2,EMP1,ENG,ETS1,ETV5,F13A1,FBXO4,FCER1G,FGF9,GLRX,GNG11,GYPC,HKDC1,HSD11B1,ID2,IKZF1,IL10RA,IL2RG,IL33,IL7R,IRF8,ITGA2,ITGB2,LAPTM5,LAT2,LY96,MALL,MAP4K1,MMP10,MTMR10,NIN,PDCD1LG2,PECAM1,PIGR,PLAU,PRDM1,PSMB8,SCN1B,SDCCAG8,SERPINA3,SLPI,SPARCL1,SPON1,SPP1,SPRY2,ST6GAL1,TFPI,TLR8,TMEM100,TMEM176A,TMEM176B,TRAF1,TRIB2,TSPAN1,TSPAN7,VWA5A,ZNF277
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	3012	87	39	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CD44,CSF1,CSF3R,CXCL1,EBI3,FAS,IFNAR1,IFNGR1,IFNGR2,IL10RB,IL12RB1,IL15RA,IL2RA,IL2RG,IL4R,IL7,INHBE,IRF1,IRF9,LEPR,LTB,OSMR,PF4,PIK3R5,PTPN1,PTPN2,SOCS1,SOCS3,STAT1,STAT2,STAT3,TGFB1,TLR2,TNFRSF1A
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	3012	200	65	23467	ACTA2,CD44,CD59,COL7A1,CXCL1,CXCL12,CXCL6,DCN,DST,ECM1,EFEMP2,EMP3,FAS,FBLN5,FGF2,FLNA,FOXC2,FSTL3,FZD8,GADD45A,GADD45B,GLIPR1,GPC1,HTRA1,ID2,IGFBP2,IGFBP4,IL15,IL32,ITGA2,ITGAV,LAMA3,LAMC1,LAMC2,LOXL1,LRP1,MMP1,MMP14,MMP2,MSX1,MXRA5,MYL9,NT5E,PCOLCE,PDLIM4,PMEPA1,PTHLH,SAT1,SCG2,SERPINE2,SLIT3,SNAI2,SPOCK1,SPP1,TFPI2,TGFB1,TGM2,THBS1,TIMP1,TPM2,TPM4,VCAN,VIM,WIPF1,WNT5A
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	3012	161	56	23467	ADD1,ANKH,ANXA1,APP,BCL10,BCL2L2,BIRC3,BMP2,CASP1,CASP4,CASP8,CAV1,CCNA1,CCND1,CCND2,CD14,CD2,CD44,CD69,CDKN1A,CFLAR,CLU,CYLD,DCN,DPYD,EMP1,ETF1,FAS,FASLG,GADD45A,GADD45B,GPX1,GSN,HSPB1,IFITM3,IFNGR1,IGFBP6,IL18,IRF1,ISG20,LEF1,MCL1,MMP2,PAK1,PLCB2,PRF1,RNASEL,SAT1,SMAD7,SOD2,TAP1,TGFB2,TIMP1,TNFSF10,TXNIP,VDAC2
HALLMARK_COAGULATION	0.0e+00	0.0e+00	3012	138	49	23467	A2M,ACOX2,ANXA1,C1QA,C1R,C1S,C2,C3,C8G,CAPN2,CFB,CFD,CFH,CFI,CLU,CSRP1,CTSB,CTSO,F10,F3,FURIN,GNG12,GSN,HTRA1,ISCU,ITGA2,LGMN,LRP1,MMP1,MMP10,MMP14,MMP2,MMP7,MSRB2,P2RY1,PECAM1,PF4,PLAU,PLEK,PROC,PRSS23,RAC1,RAPGEF3,SERPINB2,SERPING1,TFPI2,THBS1,TIMP1,VWF
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	3012	200	62	23467	ACTB,ACTN1,ADAMTS5,ALOX15B,ARPC2,CAP1,CD209,CD274,CD34,CD86,CDH3,CLDN15,CLDN5,CNN2,COL17A1,CX3CL1,DSC3,FLNC,FSCN1,GAMT,GNAI1,GNAI2,GTF2F1,ICAM2,ITGA10,ITGA2,ITGA3,ITGB4,JAM3,LAMA3,LAMB3,LAMC2,LAYN,LIMA1,MAPK11,MMP2,MSN,MYL9,NEGR1,NEXN,NF2,NFASC,PARVA,PBX2,PECAM1,PFN1,PTEN,PTPRC,RAC2,RRAS,RSU1,SDC3,SHC1,SIRPA,SKAP2,SYK,THBS3,TRAF1,VASP,VCAN,VWF,ZYX
HALLMARK_TGF_BETA_SIGNALING	0.0e+00	0.0e+00	3012	54	24	23467	ACVR1,BMP2,CDK9,ENG,FKBP1A,FURIN,HIPK2,ID1,ID2,ID3,IFNGR2,JUNB,NCOR2,PMEPA1,RAB31,SKI,SMAD1,SMAD3,SMAD7,TGFB1,TGFBR1,THBS1,UBE2D3,WWTR1
HALLMARK_HYPOXIA	4.0e-07	1.1e-06	3012	200	52	23467	ADM,ADORA2B,ALDOA,ALDOC,AMPD3,ANXA2,BTG1,CA12,CAV1,CDKN1A,CHST2,CP,CXCR4,DCN,DDIT4,DUSP1,ETS1,EXT1,F3,FOS,GAPDH,GBE1,GCNT2,GLRX,GPC1,GPI,GYS1,HK1,IRS2,ISG20,LXN,NDST2,NR3C1,P4HA1,PAM,PFKFB3,PFKP,PGF,PGM1,PLAC8,PNRC1,PPARGC1A,PRDX5,SDC3,SLC2A1,TES,TGFB3,TGM2,TMEM45A,TPBG,TPST2,XPNPEP1
HALLMARK_UV_RESPONSE_DN	8.8e-06	2.6e-05	3012	144	38	23467	ABCC1,ADORA2B,ANXA2,ATP2B4,ATXN1,CAV1,CDC42BPA,CELF2,DUSP1,F3,FBLN5,GCNT1,GRK5,ID1,IGF1R,IGFBP5,KIT,LAMC1,LPAR1,MAP1B,MYC,NFKB1,NR3C1,PDLIM5,PIK3CD,PTEN,RND3,RUNX1,SCHIP1,SLC7A1,SMAD3,SMAD7,SNAI2,SPOP,SYNE1,TFPI,TGFBR2,WDR37
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.4e-05	4.0e-05	3012	105	30	23467	ACTR3,AKT1S1,AP2M1,ARPC3,CDKN1A,CXCR4,DUSP3,FASLG,IL2RG,IRAK4,ITPR2,LCK,MAP2K3,MKNK1,NCK1,NOD1,PFN1,PRKCB,PTEN,RAC1,RALB,RIPK1,RIT1,RPS6KA1,SLA,SLC2A1,STAT2,THEM4,TNFRSF1A,UBE2D3
HALLMARK_ANGIOGENESIS	1.6e-05	4.2e-05	3012	36	15	23467	APP,CCND2,CXCL6,ITGAV,JAG1,JAG2,MSX1,PDGFA,PF4,PGLYRP1,PRG2,SERPINA5,SPP1,TIMP1,VCAN
HALLMARK_XENOBIOTIC_METABOLISM	1.1e-04	2.7e-04	3012	200	45	23467	ABCC2,ABCC3,ABCD2,ACOX2,AKR1C2,ALDH2,ALDH3A1,ALDH9A1,ATOH8,BCAR1,CBR1,CES1,CFB,CNDP2,CYP2S1,DHRS1,EPHA2,ETS2,F10,FAH,FAS,FMO3,GABARAPL1,GCNT2,GSTO1,HSD11B1,ID2,IGF1,IGFBP4,IRF8,KYNU,NINJ1,NMT1,PAPSS2,PDLIM5,PSMB10,SERTAD1,SLC12A4,SLC35D1,SLC46A3,SMOX,TGFB2,TMEM176B,TNFRSF1A,VNN1
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.3e-04	3.2e-04	3012	42	15	23467	CCND2,DLL1,FZD8,GNAI1,HDAC11,HEY2,JAG1,JAG2,LEF1,MYC,NCOR2,NCSTN,NOTCH1,NOTCH4,NUMB
HALLMARK_ESTROGEN_RESPONSE_LATE	2.1e-04	4.9e-04	3012	200	44	23467	ACOX2,ALDH3B1,AMFR,ATP2B4,BAG1,CA12,CAV1,CCNA1,CCND1,CD44,CXCL12,CXCL14,DNAJC1,FABP5,FOS,FOXC1,ID2,IGFBP4,ISG20,JAK1,JAK2,KLK10,KLK11,LAMC2,MOCS2,NBL1,NCOR2,PAPSS2,PGR,PRSS23,PTPN6,RAB31,RET,RPS6KA2,SERPINA3,SERPINA5,SGK1,SLC24A3,ST6GALNAC2,TFF1,TFF3,TFPI2,TPBG,TPSAB1
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	2.7e-04	5.8e-04	3012	49	16	23467	ABCC1,ATOX1,FTL,GLRX,IPCEF1,JUNB,LSP1,MBP,MSRA,PDLIM1,PFKP,PRNP,SOD2,SRXN1,TXN,TXNRD2
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.5e-03	2.9e-03	3012	200	41	23467	ABAT,ABLIM1,ALDH3B1,AMFR,BAG1,BCL11B,CA12,CBFA2T3,CCND1,CD44,CELSR1,CXCL12,DHRS3,FOS,FOXC1,GFRA1,IGF1R,IGFBP4,INHBB,JAK2,KLK10,KRT15,MYC,NBL1,NCOR2,OLFML3,PAPSS2,PGR,PRSS23,RAB31,RET,RHOD,RPS6KA2,SLC24A3,SLC2A1,TFF1,TFF3,TGM2,THSD4,TPBG,TSKU
HALLMARK_KRAS_SIGNALING_DN	1.5e-03	2.9e-03	3012	200	41	23467	ABCB11,AKR1B10,CAMK1D,CCNA1,CD40LG,CHST2,CLDN16,CPEB3,CYP39A1,EDN1,FGGY,GAMT,HTR1B,IFI44L,IFNG,IGFBP2,KCNMB1,KRT15,KRT5,LFNG,MAST3,MEFV,MTHFR,MX1,NPHS1,NUDT11,P2RX6,PDCD1,PDE6B,PRODH,PTPRJ,RYR1,RYR2,SERPINB2,SGK1,SLC16A7,SLC25A23,SYNPO,TG,TGFB2,TGM1
HALLMARK_MYOGENESIS	1.5e-03	2.9e-03	3012	200	41	23467	ABLIM1,ACHE,APP,BAG1,BDKRB2,CACNA1H,CDKN1A,CFD,CLU,COX7A1,CRYAB,EIF4A2,FGF2,FKBP1B,FLII,FXYD1,GADD45B,GJA5,GSN,HSPB2,IGF1,IGFBP7,ITGB4,LSP1,MEF2C,MEF2D,MYL3,MYO1C,MYOM1,MYOM2,NOTCH1,PDLIM7,PRNP,RIT1,RYR1,SCHIP1,SPDEF,ST5,TGFB1,TPM2,WWTR1
HALLMARK_ANDROGEN_RESPONSE	1.6e-03	3.0e-03	3012	100	24	23467	ACTN1,ALDH1A3,ANKH,B2M,CCND1,CCND3,CDK6,DNAJB9,ELL2,HERC3,ITGAV,MAF,MYL12A,NCOA4,PDLIM5,PMEPA1,PTK2B,SAT1,SGK1,SPCS3,SPDEF,SRF,TNFAIP8,TSC22D1
HALLMARK_APICAL_SURFACE	2.7e-03	4.9e-03	3012	44	13	23467	AKAP7,APP,CD160,CX3CL1,GHRL,HSPB1,IL2RB,IL2RG,LYN,MDGA1,RHCG,SCUBE1,SULF2
HALLMARK_HEDGEHOG_SIGNALING	4.2e-03	7.3e-03	3012	36	11	23467	ACHE,CDK6,CELSR1,CRMP1,ETS2,GLI1,HEY2,PML,RTN1,SCG2,SHH
HALLMARK_HEME_METABOLISM	4.8e-03	7.8e-03	3012	200	39	23467	ABCB6,ADD1,ADIPOR1,AGPAT4,ANK1,ARL2BP,BLVRA,C3,CAST,CCND3,CTSB,ELL2,ERMAP,FBXO7,FBXO9,GYPC,GYPE,HBB,LMO2,LRP10,MAP2K3,NCOA4,NFE2L1,NR3C1,OPTN,RBM38,RBM5,RIOK3,SDCBP,SIDT2,SLC2A1,SLC7A11,SMOX,SPTA1,TMEM9B,TRIM58,UROD,USP15,YPEL5
HALLMARK_MTORC1_SIGNALING	4.8e-03	7.8e-03	3012	200	39	23467	ACTR3,ALDOA,ATP6V1D,CDKN1A,CFP,CORO1A,CTSC,CXCR4,DDIT4,ETF1,FGL2,GAPDH,GBE1,GLRX,GPI,IFI30,IGFBP5,ITGB2,LGMN,MAP2K3,NAMPT,NMT1,P4HA1,PGM1,PITPNB,PNP,PPA1,PPIA,RIT1,SKAP2,SLA,SLC2A1,SLC7A11,SRD5A1,STARD4,TES,TUBA4A,UBE2D3,WARS
HALLMARK_UV_RESPONSE_UP	5.6e-03	8.8e-03	3012	158	32	23467	ABCB1,ALDOA,APOM,BAK1,BMP2,BTG1,CCND3,CLTB,CNP,CYB5R1,FOS,FURIN,GLS,GRINA,HLA-F,HTR7,IGFBP2,IRF1,JUNB,LYN,MMP14,MSX1,NXF1,PLCL1,PTPRD,RAB27A,RET,SOD2,SULT1A1,TAP1,TUBA4A,UROD

5.4 UCEC

5.4.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	4337	200	129	23467	AK2,ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRMS1L,BUB1B,CBX5,CCNB2,CCNE1,CDC20,CDC25A,CDC25B,CDCA3,CDCA8,CDK1,CDK4,CDKN1B,CDKN2A,CDKN3,CENPE,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DCTPP1,DEK,DEPDC1,DIAPH3,DLGAP5,DSCC1,E2F8,EED,ESPL1,EZH2,GINS1,GINS4,H2AFZ,HELLS,HMGA1,HMGB2,HMGB3,HMMR,HNRNPD,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LBR,LIG1,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MLH1,MSH2,MTHFD2,MYBL2,NASP,NCAPD2,NME1,NOLC1,NOP56,NUP107,NUP205,PA2G4,PAN2,PHF5A,PLK1,POLD1,POLD2,POLE,POP7,PRIM2,PRKDC,PRPS1,PSIP1,PSMC3IP,PTTG1,RACGAP1,RAD21,RAD51AP1,RAD51C,RAN,RANBP1,RFC1,RFC2,RFC3,RNASEH2A,RPA1,RPA2,RPA3,SMC3,SMC4,SMC6,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,TACC3,TBRG4,TIMELESS,TK1,TMPO,TOP2A,TRA2B,TRIP13,TUBB,UBE2S,UBE2T,UNG,USP1,XPO1,XRCC6,ZW10
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	4337	200	111	23467	ATF5,AURKA,AURKB,BIRC5,BUB1,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC25B,CDC45,CDC7,CDK1,CDK4,CDKN1B,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CKS1B,CKS2,CUL1,CUL3,DKC1,E2F1,E2F2,E2F3,E2F4,ESPL1,EXO1,EZH2,FBXO5,G3BP1,H2AFV,H2AFZ,HIRA,HIST1H2BK,HMGA1,HMGB3,HMGN2,HMMR,HNRNPD,HNRNPU,INCENP,KATNA1,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,KPNB1,LBR,LIG3,LMNB1,MAD2L1,MAPK14,MCM2,MCM3,MCM5,MCM6,MKI67,MTF2,MYBL2,NASP,NCL,NDC80,NEK2,NOLC1,NUP50,NUSAP1,ODC1,PBK,PLK1,POLE,POLQ,PRC1,PRIM2,PRMT5,PTTG1,PTTG3P,RACGAP1,RAD21,RAD54L,RPA2,SFPQ,SLC38A1,SMAD3,SMC4,SNRPD1,STIL,STMN1,SUV39H1,TACC3,TMPO,TOP2A,TPX2,TRA2B,TRAIP,TROAP,TTK,UBE2C,UBE2S,UCK2,XPO1,YTHDC1
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	4337	200	109	23467	AIMP2,C1QBP,CAD,CBX3,CCNA2,CCT2,CCT3,CCT4,CCT5,CDC20,CDC45,CDK2,CDK4,CLNS1A,CNBP,CSTF2,CUL1,DDX18,DEK,DHX15,EIF2S2,EIF3B,EIF3J,EIF4A1,ETF1,EXOSC7,FBL,G3BP1,GLO1,GNL3,H2AFZ,HDAC2,HDGF,HNRNPA2B1,HNRNPA3,HNRNPD,HNRNPR,HNRNPU,HSP90AB1,HSPD1,HSPE1,ILF2,IMPDH2,KARS,KPNA2,KPNB1,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,MRPL9,NCBP2,NDUFAB1,NHP2,NME1,NOLC1,NOP16,NOP56,ODC1,PA2G4,PABPC4,PHB,POLD2,PRPF31,PSMA1,PSMA2,PSMA4,PSMA6,PSMA7,PSMB2,PSMB3,PSMC4,PSMC6,PSMD1,PSMD14,PSMD3,PSMD7,PWP1,RAN,RANBP1,RFC4,RNPS1,RRP9,SET,SF3B3,SLC25A3,SNRPA1,SNRPB2,SNRPD1,SNRPD2,SNRPD3,SNRPG,SSB,SSBP1,STARD7,TARDBP,TCP1,TRA2B,TRIM28,TXNL4A,U2AF1,UBA2,UBE2E1,USP1,XPO1,XPOT,XRCC6
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	4337	58	43	23467	AIMP2,BYSL,CBX3,CDK4,DCTPP1,DDX18,EXOSC5,FARSA,GNL3,GRWD1,HSPD1,HSPE1,IMP4,IPO4,LAS1L,MCM4,MCM5,MRTO4,MYBBP1A,NDUFAF4,NIP7,NOLC1,NOP16,NOP2,NOP56,PA2G4,PES1,PHB,PLK1,PPAN,PPRC1,PUS1,RABEPK,RRP12,RRP9,SLC29A2,SUPV3L1,TBRG4,TCOF1,TFB2M,UNG,WDR43,WDR74
HALLMARK_MITOTIC_SPINDLE	2.0e-07	2.1e-06	4337	199	67	23467	ANLN,ARAP3,ARHGAP29,ARHGAP4,ATG4B,AURKA,BIRC5,BUB1,CCDC88A,CCNB2,CDK1,CDK5RAP2,CENPE,CENPF,CEP72,CKAP5,CLIP2,CNTROB,CSNK1D,DLGAP5,ESPL1,FBXO5,FLNA,GEMIN4,HDAC6,INCENP,ITSN1,KATNA1,KIF11,KIF15,KIF1B,KIF20B,KIF22,KIF2C,KIF3C,KIF4A,KLC1,KNTC1,LLGL1,LMNB1,LRPPRC,MAPRE1,MARK4,MYH10,NDC80,NEK2,NUSAP1,PCNT,PIF1,PLK1,PRC1,PREX1,RACGAP1,RAPGEF5,RFC1,RHOF,SAC3D1,SASS6,SMC3,SMC4,SPTAN1,TIAM1,TOP2A,TPX2,TSC1,TTK,WASF1
HALLMARK_DNA_REPAIR	1.7e-06	1.5e-05	4337	150	52	23467	ADA,ARL6IP1,BCAM,BCAP31,BOLA2,BRF2,CLP1,CMPK2,DDB1,EIF1B,ERCC3,ERCC8,FEN1,IMPDH2,ITPA,LIG1,NCBP2,NME1,POLB,POLD1,POLR1C,POLR2C,POLR2D,POLR2F,POLR2K,POLR3C,PRIM1,RAD51,RAD52,RAE1,RALA,RBX1,RFC2,RFC3,RFC4,RFC5,RNMT,RPA2,RPA3,SAC3D1,SF3A3,SSRP1,SUPT4H1,SUPT5H,TARBP2,TSG101,UMPS,UPF3B,USP11,VPS37D,ZNF707,ZWINT
HALLMARK_INTERFERON_ALPHA_RESPONSE	4.3e-06	3.1e-05	4337	97	37	23467	ADAR,BST2,CD47,CMPK2,CNP,EIF2AK2,EPSTI1,HERC6,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIT2,IFIT3,IFITM1,IFITM3,IRF7,IRF9,ISG15,LGALS3BP,LY6E,MX1,NCOA7,OASL,PARP12,PARP14,PLSCR1,PNPT1,PSME1,RNF31,RSAD2,SP110,STAT2,TRAFD1,UBE2L6,USP18
HALLMARK_UV_RESPONSE_UP	9.7e-06	6.1e-05	4337	158	52	23467	ARRB2,ASNS,ATP6V1F,BAK1,CCNE1,CDC34,CDC5L,CDK2,CDKN1C,CDKN2B,CEBPG,CLCN2,CNP,CREG1,DLG4,DNAJA1,EIF5,FEN1,FGF18,FKBP4,GAL,GGH,GLS,GPX3,HNRNPU,IGFBP2,IL6,KCNH2,KLHDC3,MGAT1,NPTX2,NPTXR,PARP2,PDAP1,POLG2,PPAT,PPIF,PPT1,PRPF3,PSMC3,RET,RFC4,RXRB,SLC6A12,SLC6A8,STIP1,STK25,TACR3,TARS,TYRO3,UROD,YKT6
HALLMARK_MTORC1_SIGNALING	1.3e-05	7.0e-05	4337	200	62	23467	ABCF2,ACTR3,ADIPOR2,ARPC5L,ASNS,AURKA,BUB1,CALR,CCNF,CCT6A,CDC25A,DDIT3,DHCR24,EBP,EEF1E1,EIF2S2,ENO1,ETF1,GMPS,HSP90B1,HSPA4,HSPA5,HSPA9,HSPD1,HSPE1,IFI30,IMMT,LGMN,LTA4H,MCM2,MCM4,ME1,MLLT11,MTHFD2,NFIL3,NMT1,NUFIP1,NUP205,PDAP1,PHGDH,PLK1,PNO1,PSAT1,PSMA4,PSMC2,PSMC4,PSMC6,PSMD12,PSMD13,PSMD14,RPA1,RRP9,SERPINH1,SHMT2,SLC2A1,SRD5A1,STIP1,TOMM40,TRIB3,UCHL5,UNG,YKT6
HALLMARK_MYOGENESIS	5.0e-05	2.5e-04	4337	200	60	23467	ACHE,ACTN2,ACTN3,ADCY9,AGRN,AKT2,ANKRD2,ATP6AP1,CAMK2B,CASQ1,CHRNB1,CKMT2,COX6A2,CRYAB,DTNA,EFS,ENO3,FABP3,FDPS,FKBP1B,FOXO4,FST,GAA,GPX3,HDAC5,HSPB2,ITGA7,KCNH2,KIFC3,MRAS,MYH3,MYH7,MYH8,MYL4,MYLPF,MYOM1,MYOZ1,NOS1,PC,PDLIM7,PFKM,PGAM2,PKIA,PRNP,PTP4A3,PVALB,PYGM,RYR1,SCHIP1,SGCG,SLC6A8,SLN,SPEG,SPHK1,SPTAN1,TEAD4,TNNC1,TNNT1,TNNT3,WWTR1
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	8.7e-05	3.9e-04	4337	113	38	23467	ASNS,ATF6,BANF1,CALR,CEBPB,CEBPG,CHAC1,CKS1B,DDX10,DKC1,EIF4A1,EIF4A3,EIF4G1,EXOSC10,EXOSC2,EXOSC5,EXOSC9,FUS,GEMIN4,GOSR2,HSP90B1,HSPA5,HSPA9,IFIT1,IGFBP1,KHSRP,LSM4,MTHFD2,NFYA,NHP2,NOLC1,NOP56,PDIA6,PSAT1,RRP9,TARS,VEGFA,XPOT
HALLMARK_KRAS_SIGNALING_DN	3.4e-04	1.4e-03	4337	200	57	23467	ABCG4,ALOX12B,ARHGDIG,ARPP21,ATP6V1B1,CACNA1F,CALCB,CAMK1D,CDKAL1,CLDN16,CLSTN3,CNTFR,COPZ2,CPA2,DLK2,FGFR3,GPR19,GPR3,GPRC5C,IFI44L,IGFBP2,KCND1,KCNE2,KCNQ2,KLK7,KLK8,LGALS7,MX1,MYH7,MYO15A,NOS1,NR6A1,NTF3,NUDT11,PCDHB1,PDE6B,PDK2,PLAG1,PNMT,RGS11,RSAD2,RYR1,SLC12A3,SLC25A23,SLC29A3,SLC30A3,SLC38A3,SNCB,SNN,SPTBN2,TCF7L1,TEX15,TGM1,THRB,TNNI3,UPK3B,YBX2
HALLMARK_INTERFERON_GAMMA_RESPONSE	1.1e-03	3.9e-03	4337	200	55	23467	ADAR,ARID5B,BST2,C1R,CCL7,CMPK2,DDX58,EIF2AK2,EPSTI1,HERC6,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIT1,IFIT2,IFIT3,IFITM3,IFNAR2,IL6,IRF5,IRF7,IRF9,ISG15,LATS2,LGALS3BP,LY6E,METTL7B,MTHFD2,MX1,MX2,NUP93,OAS3,OASL,PARP12,PARP14,PLSCR1,PNPT1,PSMA2,PSMB2,PSME1,PTPN2,RNF31,RSAD2,SOCS3,SP110,STAT1,STAT2,TNFAIP2,TNFAIP6,TRAFD1,UBE2L6,USP18,XAF1
HALLMARK_SPERMATOGENESIS	1.1e-03	3.9e-03	4337	135	40	23467	ACRV1,AGFG1,AKAP4,AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,CSNK2A2,DDX25,DMRT1,ELOVL3,EZH2,GSTM3,IL12RB2,IL13RA2,IP6K1,KIF2C,LDHC,MLF1,NAA11,NCAPH,NEFH,NEK2,NOS1,PARP2,PCSK1N,PGS1,RFC4,RPL39L,SCG3,SCG5,TKTL1,TNNI3,TOPBP1,TSN,TTK,YBX2,ZPBP
HALLMARK_APICAL_JUNCTION	8.3e-03	2.8e-02	4337	200	51	23467	ACTN2,ACTN3,ADRA1B,AKT2,ALOX15B,ARPC2,ATP1A3,BAIAP2,BMP1,CADM3,CALB2,CDH3,CDH6,CERCAM,CLDN11,CLDN19,CLDN4,CLDN6,CLDN7,CLDN9,COL9A1,DHX16,GRB7,ICAM2,ICAM5,INPPL1,ITGA3,JUP,KCNH2,LAYN,MAP4K2,MAPK14,MDK,MSN,MYH10,NLGN2,PBX2,PCDH1,RHOF,RRAS,SDC3,SGCE,SLC30A3,SPEG,STX4,THBS3,THY1,TIAL1,TRO,TSC1,TSPAN4

5.4.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	3926	200	100	23467	AKT1,BCL10,BCL3,CCL11,CCL19,CCL2,CCL22,CCL4,CCL5,CCND2,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40LG,CD7,CD74,CD79A,CD86,CD8A,CD8B,CD96,CFP,CRTAM,CTSS,CXCL13,CXCL9,CXCR3,EGFR,ETS1,F2R,FAS,FASLG,FGR,GALNT1,GCNT1,GPR65,GZMA,GZMB,HDAC9,HIF1A,HLA-DMA,HLA-DMB,HLA-DQA1,HLA-DRA,IFNG,IFNGR1,IFNGR2,IGSF6,IL12RB1,IL16,IL18,IL18RAP,IL1B,IL2RA,IL2RB,IL2RG,IL4R,IL7,INHBA,IRF4,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,KRT1,LCK,LCP2,LY86,LYN,NCF4,NCR1,NLRP3,NOS2,PF4,PRF1,PRKCB,PSMB10,PTPRC,RIPK2,SIT1,SPI1,SRGN,STAB1,STAT4,TLR1,TLR2,TLR3,TLR6,TRAT1,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	3926	200	95	23467	ADM,ADORA2B,AHR,APLNR,ATP2A2,ATP2C1,BTG2,C3AR1,CALCRL,CCL17,CCL2,CCL20,CCL22,CCL24,CCL5,CCR7,CCRL2,CD14,CD48,CD69,CD70,CDKN1A,CSF3,CXCL9,CXCR6,CYBB,DCBLD2,F3,FFAR2,FPR1,GCH1,GNA15,GPR132,GPR183,HAS2,HBEGF,HIF1A,IFNAR1,IFNGR2,IL10RA,IL15RA,IL18,IL18R1,IL18RAP,IL1A,IL1B,IL1R1,IL2RB,IL4R,IL7R,INHBA,KCNA3,KCNJ2,LCK,LCP2,LDLR,LPAR1,LTA,LYN,MEP1A,MMP14,NDP,NFKB1,NLRP3,NMUR1,NOD2,OSMR,P2RX4,P2RX7,PDE4B,PLAUR,PTGER2,PTPRE,RELA,RGS1,RIPK2,SCARF1,SELE,SELL,SERPINE1,SGMS2,SLAMF1,SLC11A2,SLC1A2,SLC31A1,SLC31A2,SLC4A4,STAB1,TLR1,TLR2,TLR3,TNFRSF1B,TNFSF15,TPBG,VIP
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	3926	200	87	23467	B4GALT1,BCL2A1,BCL3,BHLHE40,BIRC3,BTG1,BTG2,BTG3,CCL2,CCL20,CCL4,CCL5,CCND1,CCRL2,CD44,CD69,CDKN1A,CXCL2,CXCL3,DRAM1,DUSP4,EGR3,ETS2,F3,FOS,FOSB,G0S2,GADD45A,GCH1,GEM,GPR183,HBEGF,HES1,ID2,IER3,IER5,IFNGR2,IL15RA,IL18,IL1A,IL1B,IL7R,INHBA,JAG1,KDM6B,KLF10,KLF2,KLF4,KLF9,KYNU,LDLR,MAP2K3,MSC,NFAT5,NFE2L2,NFKB1,NINJ1,NR4A2,PDE4B,PDLIM5,PFKFB3,PHLDA1,PHLDA2,PLAU,PLAUR,PMEPA1,PTGS2,PTPRE,RCAN1,REL,RELA,RHOB,RIPK2,SAT1,SERPINB8,SERPINE1,SLC2A3,TANK,TGIF1,TIPARP,TLR2,TNC,TNFAIP3,TNIP1,TRAF1,ZC3H12A,ZFP36
HALLMARK_ESTROGEN_RESPONSE_EARLY	0.0e+00	0.0e+00	3926	200	79	23467	ABHD2,ADD3,AFF1,AKAP1,AMFR,AQP3,AR,B4GALT1,BAG1,BCL11B,BCL2,BHLHE40,CA12,CANT1,CBFA2T3,CCND1,CD44,CISH,DHRS3,DLC1,DYNLT3,EGR3,ELF1,ELOVL5,FAM102A,FDFT1,FHL2,FOS,GJA1,GREB1,HES1,HSPB8,IGFBP4,IL17RB,INPP5F,ITPK1,JAK2,KDM4B,KLF10,KLF4,KRT18,LAD1,MAST4,MLPH,MPPED2,MYB,MYOF,NADSYN1,NRIP1,OLFML3,PGR,PODXL,RAPGEFL1,RARA,RBBP8,REEP1,SEC14L2,SFN,SIAH2,SLC1A1,SLC1A4,SLC22A5,SLC26A2,SLC27A2,SLC37A1,SLC39A6,SLC7A5,SLC9A3R1,SULT2B1,SYBU,TFF1,TFF3,TGM2,TIPARP,TPBG,TSKU,UGCG,WFS1,XBP1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	3926	200	79	23467	ABCB1,ALDH1A3,ANGPTL4,ANO1,ANXA10,APOD,BIRC3,C3AR1,CBR4,CCL20,CCND2,CD37,CDADC1,CFH,CLEC4A,CTSS,DCBLD2,DNMBP,DOCK2,DUSP6,ENG,ETS1,ETV1,EVI5,FBXO4,FCER1G,FLT4,FUCA1,G0S2,GADD45G,GNG11,GYPC,HBEGF,HDAC9,HSD11B1,ID2,IKZF1,IL10RA,IL1B,IL2RG,IL33,IL7R,INHBA,IRF8,ITGA2,ITGB2,ITGBL1,KCNN4,KLF4,LAPTM5,LAT2,LCP1,MALL,MMP11,MPZL2,MYCN,NIN,NRP1,PIGR,PLAU,PLAUR,PLVAP,PRDM1,PRRX1,PTGS2,PTPRR,RABGAP1L,SATB1,SERPINA3,SOX9,SPRY2,TLR8,TNFAIP3,TNFRSF1B,TRAF1,TSPAN1,TSPAN13,VWA5A,ZNF277
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	3926	200	77	23467	ACTA2,ADAM12,BDNF,CALD1,CD44,CD59,CDH11,COL12A1,COL1A1,COL1A2,COL3A1,COL5A2,DAB2,DCN,DKK1,DPYSL3,DST,ECM1,ECM2,EDIL3,FAP,FAS,FBLN1,FBN1,FGF2,FOXC2,FUCA1,FZD8,GADD45A,GEM,GJA1,GLIPR1,GREM1,HTRA1,ID2,IGFBP4,INHBA,ITGA2,ITGB1,LAMA3,LAMC2,LOXL2,LRRC15,LUM,MGP,MMP14,MMP2,MSX1,MYLK,NT5E,NTM,PDGFRB,PLAUR,PLOD2,PMEPA1,PMP22,PRRX1,PTHLH,RHOB,SAT1,SDC1,SERPINE1,SERPINE2,SFRP4,SGCB,SGCD,SNAI2,SNTB1,SPOCK1,TFPI2,TGFBI,TGM2,THBS1,TNC,TNFAIP3,VIM,WIPF1
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	3926	200	77	23467	AEN,ANKRA2,APAF1,BAX,BTG1,BTG2,CASP1,CCND2,CCNG1,CDH13,CDKN1A,CLCA2,DDB2,DDIT4,DGKA,DRAM1,EI24,EPHX1,ERCC5,F2R,FAS,FDXR,FOS,FOXO3,FUCA1,GADD45A,GPX2,HBEGF,HSPA4L,IER3,IER5,IL1A,ITGB4,KIF13B,KLF4,LRMP,MDM2,MKNK2,MXD4,NHLH2,NINJ1,OSGIN1,PERP,PHLDA3,PITPNC1,PLK3,PMM1,POLH,PRKAB1,PTPRE,PVT1,RAB40C,RB1,RETSAT,RPS27L,SAT1,SDC1,SEC61A1,SESN1,SFN,SLC7A11,SP1,STEAP3,STOM,TGFA,TM4SF1,TM7SF3,TP53,TP63,TXNIP,VDR,VWA5A,WWP1,XPC,ZBTB16,ZFP36L1,ZMAT3
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	3926	161	64	23467	ADD1,ANXA1,BAX,BCL10,BIRC3,BNIP3L,BTG2,BTG3,CASP1,CASP2,CASP6,CASP7,CAV1,CCNA1,CCND1,CCND2,CD14,CD2,CD44,CD69,CDKN1A,CYLD,DAP,DCN,DNAJC3,DPYD,EGR3,F2R,FAS,FASLG,FDXR,GADD45A,GCH1,GNA15,GSN,GSR,HGF,IER3,IFNGR1,IL18,IL1A,IL1B,KRT18,LEF1,LGALS3,LUM,MADD,MMP2,PAK1,PDCD4,PDGFRB,PPP2R5B,PRF1,RARA,RELA,RETSAT,RHOB,RNASEL,SAT1,SATB1,SLC20A1,TSPO,TXNIP,XIAP
HALLMARK_XENOBIOTIC_METABOLISM	0.0e+00	0.0e+00	3926	200	74	23467	ABCC2,ABCC3,ABCD2,ABHD6,ACOX1,ACOX3,ACSM1,ADH1C,ADH5,ALDH2,ALDH3A1,ALDH9A1,AP4B1,ATP2A2,BCAR1,CASP6,CAT,CNDP2,COMT,CYP2J2,DHRS7,ELOVL5,EPHX1,ESR1,ETFDH,ETS2,FAS,FBLN1,FBP1,FMO1,GAD1,GCH1,GCLC,GCNT2,GNMT,GSR,GSS,GSTA3,HES6,HSD11B1,HSD17B2,ID2,IDH1,IGF1,IGFBP4,IL1R1,IRF8,ITIH4,KYNU,MAN1A1,MCCC2,NDRG2,NINJ1,NQO1,PDLIM5,PEMT,PLG,PMM1,PPARD,PSMB10,PYCR1,RETSAT,SAR1B,SERPINA6,SERPINE1,SLC35B1,SLC46A3,SLC6A6,SSR3,TMBIM6,TNFRSF1A,TTPA,UGDH,VNN1
HALLMARK_ESTROGEN_RESPONSE_LATE	0.0e+00	0.0e+00	3926	200	73	23467	ABHD2,ADD3,AFF1,AGR2,ALDH3A2,AMFR,BAG1,BATF,BCL2,BTG3,CA12,CAV1,CCNA1,CCND1,CD44,CISH,CXCL14,DLG5,DNAJC1,DYNLT3,EGR3,ELOVL5,FAM102A,FDFT1,FOS,HOMER2,HSPA4L,HSPB8,ID2,IGFBP4,IL17RB,ITPK1,JAK2,KLF4,KLK11,LAMC2,LTF,MAPK13,MOCS2,MYB,MYOF,NRIP1,PDCD4,PERP,PGR,PRLR,RAPGEFL1,RBBP8,SERPINA1,SERPINA3,SERPINA5,SFN,SIAH2,SLC1A4,SLC22A5,SLC26A2,SLC27A2,SLC7A5,SLC9A3R1,ST6GALNAC2,SULT2B1,TFF1,TFF3,TFPI2,TPBG,TPSAB1,TSPAN13,TST,UGDH,UNC13B,WFS1,XBP1,ZFP36
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	3926	200	71	23467	ABCB1,ADAM19,AHR,ALCAM,AMACR,ARL4A,BATF,BCL2,BHLHE40,BMPR2,CCND2,CCR4,CD44,CD48,CD86,CDC42SE2,CISH,CST7,CTLA4,CYFIP1,DHRS3,ECM1,F2RL2,FGL2,GBP4,GPR65,GPR83,ICOS,IFNGR1,IKZF2,IL10RA,IL18R1,IL1R2,IL1RL1,IL2RA,IL2RB,IL4R,IRF4,IRF8,ITGA6,ITIH5,MAP6,MYO1C,MYO1E,NFKBIZ,NRP1,NT5E,P2RX4,PHLDA1,PRKCH,PTCH1,PTGER2,RABGAP1L,RHOB,RHOH,RORA,SELL,SELP,SHE,SLC2A3,SMPDL3A,SNX14,SOCS2,SWAP70,SYNGR2,TGM2,TNFRSF1B,TNFRSF21,TNFRSF4,TRAF1,XBP1
HALLMARK_UV_RESPONSE_DN	0.0e+00	0.0e+00	3926	144	55	23467	ADD3,ADORA2B,AKT3,AMPH,ANXA2,ARHGEF9,ATP2C1,ATXN1,BDNF,BHLHE40,CAV1,CDC42BPA,CELF2,COL1A1,COL1A2,COL3A1,COL5A2,DAB2,DDAH1,DLC1,F3,FHL2,GCNT1,GJA1,GRK5,HAS2,ICA1,ID1,INPP4B,INSIG1,KCNMA1,LDLR,LPAR1,MAP1B,MGLL,NFKB1,NRP1,PDGFRB,PDLIM5,PIAS3,PIK3R3,PLCB4,PMP22,PPARG,PRKCA,PTGFR,RBPMS,RUNX1,SERPINE1,SIPA1L1,SLC22A18,SNAI2,SYNE1,SYNJ2,VLDLR
HALLMARK_ANDROGEN_RESPONSE	0.0e+00	1.0e-07	3926	100	40	23467	ABHD2,ACSL3,ACTN1,AKT1,ALDH1A3,B4GALT1,BMPR1B,CAMKK2,CCND1,DNAJB9,ELL2,ELOVL5,GPD1L,GSR,HERC3,HMGCR,HOMER2,HPGD,INPP4B,INSIG1,IQGAP2,KLK2,MAF,MAK,NCOA4,NKX3-1,PDLIM5,PGM3,PMEPA1,PTK2B,SAT1,SEC24D,SLC26A2,SPCS3,SPDEF,STK39,TMEM50A,TMPRSS2,UAP1,UBE2J1
HALLMARK_FATTY_ACID_METABOLISM	5.0e-07	1.7e-06	3926	158	52	23467	AADAT,ACADS,ACOX1,ACSL4,ACSL5,ACSM3,ADH1C,ALAD,ALDH3A1,ALDH3A2,ALDH9A1,AOC3,AQP7,BMPR1B,CA6,CBR3,CD1D,CEL,CPT2,CRAT,CRYZ,DECR1,ELOVL5,EPHX1,ETFDH,FABP2,FMO1,G0S2,GLUL,GPD2,GSTZ1,HADH,HADHB,HMGCL,HPGD,HSD17B4,HSD17B7,HSDL2,IDH1,INMT,MCEE,METAP1,MGLL,PCBD1,RDH11,RETSAT,SLC22A5,SUCLG2,TP53INP2,UGDH,VNN1,XIST
HALLMARK_BILE_ACID_METABOLISM	9.0e-07	3.1e-06	3926	112	40	23467	ABCA5,ABCA6,ABCA8,ABCA9,ABCD2,ABCD3,ACSL5,ALDH9A1,AMACR,AR,ATXN1,CAT,CH25H,CYP39A1,DIO2,EFHC1,FADS2,FDXR,GNMT,GNPAT,GSTK1,HAO1,HSD17B4,IDH1,ISOC1,LCK,NEDD4,PEX1,PEX11G,PEX12,PEX13,PEX7,PNPLA8,RETSAT,SCP2,SERPINA6,SLC22A18,SLC23A1,SLC27A2,SULT2B1
HALLMARK_IL6_JAK_STAT3_SIGNALING	1.8e-06	5.5e-06	3926	87	33	23467	A2M,ACVRL1,CD14,CD44,CSF2RB,CXCL13,CXCL3,CXCL9,FAS,IFNAR1,IFNGR1,IFNGR2,IL12RB1,IL15RA,IL17RB,IL18R1,IL1B,IL1R1,IL1R2,IL2RA,IL2RG,IL4R,IL7,ITGA4,MYD88,OSMR,PF4,STAM2,TLR2,TNFRSF1A,TNFRSF1B,TNFRSF21,TYK2
HALLMARK_COMPLEMENT	4.8e-06	1.4e-05	3926	200	59	23467	ADAM9,ANG,ANXA5,C4BPB,CALM1,CASP1,CASP5,CASP7,CBLB,CCL5,CD40LG,CD46,CD59,CDH13,CFH,CPM,CSRP1,CTSH,CTSO,CTSS,DOCK10,DUSP6,F3,F5,FCER1G,GCA,GNAI2,GNG2,GPD2,GZMA,GZMB,GZMK,IRF2,ITGAM,JAK2,KLKB1,KYNU,LCK,LCP2,LGALS3,LIPA,LTF,LYN,MMP14,NOTCH4,PCSK9,PDP1,PIK3CG,PLA2G4A,PLAUR,PLG,SERPINA1,SERPINE1,SH2B3,TFPI2,TNFAIP3,WAS,XPNPEP1,ZEB1
HALLMARK_PEROXISOME	1.9e-05	5.4e-05	3926	104	35	23467	ABCB1,ABCD2,ABCD3,ACOX1,ACSL4,ACSL5,ALDH9A1,ATXN1,BCL10,CAT,CEL,CLN8,CRAT,DHRS3,ELOVL5,GNPAT,GSTK1,HMGCL,HSD17B4,IDE,IDH1,ISOC1,PABPC1,PEX11B,PEX13,PEX2,RDH11,RETSAT,SCP2,SEMA3C,SERPINA6,SLC27A2,STS,SULT2B1,TSPO
HALLMARK_INTERFERON_GAMMA_RESPONSE	2.1e-05	5.5e-05	3926	200	57	23467	ARL4A,BTG1,CASP1,CASP7,CCL2,CCL5,CD274,CD69,CD74,CD86,CDKN1A,CFH,CIITA,CSF2RB,CXCL9,FAS,FGL2,FPR1,GBP4,GCH1,GPR18,GZMA,HIF1A,HLA-DMA,HLA-DQA1,HLA-DRB1,IL10RA,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF2,IRF4,IRF8,ISOC1,ITGB7,JAK2,KLRK1,LCP2,MYD88,NFKB1,NOD1,P2RY14,PDE4B,PFKP,PLA2G4A,PSMB10,PTGS2,RIPK2,SAMHD1,SELP,SLAMF7,STAT4,TNFAIP3,TRIM26,TXNIP
HALLMARK_HYPOXIA	4.3e-05	1.1e-04	3926	200	56	23467	ADM,ADORA2B,ALDOB,AMPD3,ANGPTL4,ANXA2,BCL2,BHLHE40,BNIP3L,BTG1,CA12,CASP6,CAV1,CDKN1A,CHST3,DCN,DDIT4,EGFR,ERRFI1,ETS1,F3,FBP1,FOS,FOXO3,GBE1,GCNT2,GPC4,HDLBP,HS3ST1,IER3,LXN,P4HA2,PAM,PFKFB3,PFKP,PHKG1,PLAC8,PLAUR,PRKCA,RORA,SELENBP1,SERPINE1,SIAH2,SLC2A3,SLC6A6,SULT2B1,TGFB3,TGFBI,TGM2,TIPARP,TNFAIP3,TPBG,TPST2,VLDLR,XPNPEP1,ZFP36
HALLMARK_WNT_BETA_CATENIN_SIGNALING	6.0e-05	1.4e-04	3926	42	18	23467	AXIN2,CCND2,CSNK1E,DKK1,DKK4,FZD1,FZD8,HEY1,HEY2,JAG1,LEF1,NKD1,NOTCH4,NUMB,PPARD,PTCH1,TCF7,TP53
HALLMARK_COAGULATION	4.7e-04	1.1e-03	3926	138	39	23467	A2M,ADAM9,ANG,ANXA1,APOC2,ARF4,CAPN2,CFH,CSRP1,CTSE,CTSH,CTSK,CTSO,DUSP14,DUSP6,F2RL2,F3,FBN1,GNG12,GSN,HTRA1,ITGA2,KLKB1,MEP1A,MMP11,MMP14,MMP2,P2RY1,PF4,PLAU,PLG,RAC1,SERPINA1,SERPINE1,TFPI2,THBD,THBS1,VWF,WDR1
HALLMARK_ADIPOGENESIS	5.7e-04	1.2e-03	3926	200	52	23467	ABCB8,ACADS,ACLY,ACOX1,AGPAT3,ALDH2,ANGPTL4,ARL4A,CAT,CD302,CMBL,CMPK1,COL15A1,CPT2,CRAT,DECR1,DHRS7,DHRS7B,DNAJB9,DNAJC15,DRAM2,ELMOD3,FABP4,GADD45A,GBE1,GPD2,GPHN,HADH,HSPB8,IDH1,IDH3A,IFNGR1,ITIH5,LAMA4,MGLL,MYLK,OMD,ORM1,PDCD4,PEMT,PFKFB3,PPARG,PRDX3,REEP5,RETSAT,RREB1,SCP2,SLC27A1,STOM,TANK,TST,UCP2
HALLMARK_GLYCOLYSIS	5.7e-04	1.2e-03	3926	200	52	23467	ADORA2B,AGL,AK3,AKR1A1,ALDH9A1,ALDOB,ANG,ANGPTL4,ARTN,B4GALT1,B4GALT4,CACNA1H,CASP6,CD44,CHPF,CHST1,CHST6,DCN,DDIT4,EGFR,EGLN3,GALK2,GCLC,GFPT1,GMPPA,GMPPB,GNE,GOT2,GPC4,GPR87,HDLBP,IDH1,IER3,ME2,NT5E,P4HA2,PAM,PAXIP1,PFKFB1,PFKP,PLOD2,SDC1,SLC35A3,SOX9,SPAG4,SRD5A3,TFF3,TGFA,TGFBI,TPBG,TXN,VLDLR
HALLMARK_PI3K_AKT_MTOR_SIGNALING	7.8e-04	1.6e-03	3926	105	31	23467	ADCY2,AKT1,ARF1,ARHGDIA,CDKN1A,CLTC,EGFR,EIF4E,FASLG,GNA14,IL2RG,IRAK4,ITPR2,LCK,MAP2K3,MAP2K6,MAPK1,MAPK9,MKNK2,MYD88,NOD1,PIK3R3,PLCB1,PLCG1,PPP2R1B,PRKCB,RAC1,RPS6KA1,SFN,SLA,TNFRSF1A
HALLMARK_APICAL_JUNCTION	1.0e-03	2.0e-03	3926	200	51	23467	ACTB,ACTG1,ACTG2,ACTN1,ADAM15,ADAM9,AKT3,AMIGO2,ARHGEF6,B4GALT1,CD274,CD34,CD86,CDH11,CNTN1,COL17A1,CRAT,EGFR,EPB41L2,FBN1,GNAI2,HADH,INSIG1,ITGA10,ITGA2,ITGB1,ITGB4,LAMA3,LAMC2,LIMA1,MAPK13,MMP2,MPZL1,MPZL2,NEGR1,NFASC,PARVA,PIK3R3,PLCG1,PPP2R2C,PTPRC,RSU1,SYK,TAOK2,TGFBI,TRAF1,TUBG1,VWF,WASL,WNK4,ZYX
HALLMARK_HEME_METABOLISM	1.8e-03	3.3e-03	3926	200	50	23467	ADD1,ADIPOR1,ALAD,ALDH6A1,AQP3,ARHGEF12,ATG4A,BMP2K,BNIP3L,BTG2,BTRC,CAST,CAT,CCDC28A,CLIC2,CTSE,ELL2,FN3K,FOXJ2,FOXO3,GCLC,GDE1,GYPC,KAT2B,KLF3,LRP10,MAP2K3,MARCH2,MKRN1,MOCOS,NCOA4,NFE2L1,P4HA2,PPP2R5B,PRDX2,RBM5,RNF123,SDCBP,SEC14L1,SELENBP1,SLC11A2,SLC22A4,SLC30A1,SLC30A10,SLC7A11,SYNJ1,TMEM9B,TSPAN5,UCP2,VEZF1
HALLMARK_PROTEIN_SECRETION	3.5e-03	6.3e-03	3926	96	27	23467	AP2B1,ARCN1,ARF1,ARFGAP3,ARFIP1,BET1,CD63,CLTC,COPE,DST,EGFR,GBF1,ICA1,KRT18,MAPK1,NAPA,PAM,RAB14,SCAMP1,SEC24D,STX12,TMED10,TMED2,TMX1,TOM1L1,TSPAN8,VAMP4
HALLMARK_CHOLESTEROL_HOMEOSTASIS	3.9e-03	6.4e-03	3926	74	22	23467	ACTG1,ADH4,ALCAM,ANTXR2,ANXA5,CPEB2,CYP51A1,ERRFI1,ETHE1,FADS2,FAM129A,FBXO6,FDFT1,HMGCR,HSD17B7,JAG1,LDLR,LGALS3,PLAUR,PPARG,S100A11,TP53INP1
HALLMARK_ANGIOGENESIS	4.0e-03	6.4e-03	3926	36	13	23467	APOH,CCND2,COL3A1,COL5A2,JAG1,LUM,MSX1,NRP1,PF4,SERPINA5,SLCO2A1,THBD,TNFRSF21
HALLMARK_PANCREAS_BETA_CELLS	4.0e-03	6.4e-03	3926	40	14	23467	AKT3,CHGA,ELP4,FOXA2,HNF1A,INSM1,NKX2-2,PAX6,PDX1,SEC11A,SPCS1,SRP9,SRPRB,VDR
HALLMARK_MTORC1_SIGNALING	5.2e-03	8.0e-03	3926	200	48	23467	ACLY,ACSL3,ADD3,ATP2A2,ATP6V1D,BHLHE40,BTG2,CCNG1,CDKN1A,CFP,CORO1A,CYB5B,CYP51A1,DDIT4,EDEM1,EGLN3,ELOVL5,FADS2,FAM129A,FDXR,FGL2,GBE1,GCLC,GSR,HMGCR,IDH1,INSIG1,ITGB2,LDLR,MAP2K3,PIK3R3,PLOD2,PSPH,RDH11,SDF2L1,SEC11A,SLA,SLC1A4,SLC2A3,SLC6A6,SLC7A11,SLC7A5,SLC9A3R1,SSR1,TUBG1,UFM1,VLDLR,XBP1
HALLMARK_TGF_BETA_SIGNALING	5.6e-03	8.4e-03	3926	54	17	23467	ACVR1,BMPR2,ENG,ID1,ID2,ID3,IFNGR2,KLF10,NOG,PMEPA1,RHOA,SERPINE1,SLC20A1,SPTBN1,TGIF1,THBS1,XIAP
HALLMARK_HEDGEHOG_SIGNALING	1.1e-02	1.6e-02	3926	36	12	23467	AMOT,ETS2,GLI1,HEY1,HEY2,NRP1,NRP2,PLG,PTCH1,SHH,UNC5C,VLDLR
HALLMARK_NOTCH_SIGNALING	1.2e-02	1.6e-02	3926	32	11	23467	CCND1,DTX2,FZD1,HES1,HEYL,JAG1,LFNG,PPARD,PRKCA,PSENEN,WNT2
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	1.2e-02	1.6e-02	3926	49	15	23467	CAT,GCLC,GSR,HMOX2,IPCEF1,LSP1,MBP,MGST1,MSRA,NDUFB4,NQO1,PDLIM1,PFKP,PRDX2,TXN
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	3.2e-02	4.3e-02	3926	113	27	23467	ALDH18A1,BAG3,CCL2,CNOT6,DDIT4,DNAJB9,DNAJC3,EDEM1,EEF2,EIF4E,ERN1,EXOC2,FKBP14,HERPUD1,KIF5B,PDIA5,SEC11A,SLC1A4,SLC30A5,SLC7A5,SPCS1,SPCS3,SRPRB,SSR1,WFS1,WIPI1,XBP1

5.5 HNSC

5.5.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	1311	58	28	23467	CDK4,DDX18,GNL3,HSPD1,IMP4,IPO4,LAS1L,MRTO4,MYBBP1A,NOP2,NPM1,PES1,PLK1,PPAN,PPRC1,PUS1,RABEPK,RRP12,RRP9,SLC19A1,SLC29A2,SRM,SUPV3L1,TCOF1,TFB2M,TMEM97,WDR43,WDR74
HALLMARK_MTORC1_SIGNALING	0.0e+00	2.0e-07	1311	200	34	23467	ABCF2,ACACA,ASNS,CDC25A,DHCR7,FADS1,FADS2,G6PD,GPI,HMBS,HPRT1,HSPA9,HSPD1,ME1,NUFIP1,P4HA1,PGK1,PHGDH,PLK1,PNO1,PSAT1,RPN1,RRP9,SCD,SDF2L1,SERPINH1,SHMT2,SLC2A1,SLC7A11,STIP1,TMEM97,TOMM40,TRIB3,TXNRD1
HALLMARK_MYC_TARGETS_V1	8.0e-07	1.3e-05	1311	200	30	23467	ABCE1,C1QBP,CAD,CCT3,CCT4,CDK4,DDX18,EIF3B,EXOSC7,GNL3,HDGF,HPRT1,HSP90AB1,HSPD1,ILF2,IMPDH2,NPM1,ODC1,PGK1,POLD2,RNPS1,RRP9,SET,SF3B3,SMARCC1,SRM,TRIM28,UBA2,XPOT,YWHAE
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.1e-06	1.3e-05	1311	113	21	23467	ALDH18A1,ASNS,DDX10,DKC1,EDC4,EIF4EBP1,GEMIN4,HSPA9,HYOU1,KDELR3,KHSRP,NOP14,NPM1,PARN,PDIA5,PSAT1,RRP9,SPCS1,SRPRB,STC2,XPOT
HALLMARK_GLYCOLYSIS	1.4e-04	1.4e-03	1311	200	25	23467	ABCB6,ADORA2B,ARTN,CHPF,CHST1,CLDN9,COL5A1,DPYSL4,ENO2,G6PD,GMPPA,GPC1,HDLBP,HOMER1,IRS2,KDELR3,LHX9,ME1,MET,MPI,P4HA1,PGK1,PLOD1,PYGB,STC2
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	8.3e-04	6.9e-03	1311	200	23	23467	BGN,COL12A1,COL5A1,DKK1,ENO2,GPC1,ITGA5,ITGB5,LAMA1,LAMC2,MAGEE1,MATN3,MEST,PLOD1,PMEPA1,PTHLH,PVR,SERPINH1,SLC6A8,SNAI2,SPOCK1,SPP1,TPM1
HALLMARK_PANCREAS_BETA_CELLS	1.4e-03	1.0e-02	1311	40	8	23467	FOXA2,NKX2-2,NKX6-1,PDX1,PKLR,SPCS1,SRPRB,SYT13
HALLMARK_G2M_CHECKPOINT	1.9e-03	1.2e-02	1311	200	22	23467	BIRC5,CBX1,CDC25A,CDK4,DKC1,E2F4,HMGA1,HMGB3,ILF3,KIF4A,LIG3,MYBL2,NCL,ODC1,ODF2,PLK1,SMARCC1,TNPO2,TPX2,TRAIP,UCK2,UPF1
HALLMARK_HYPOXIA	8.6e-03	4.8e-02	1311	200	20	23467	ADORA2B,BGN,COL5A1,DPYSL4,ENO2,GPC1,GPI,HDLBP,INHA,IRS2,KDELR3,NEDD4L,P4HA1,PDGFB,PGK1,PKLR,PRKCA,SCARB1,SLC2A1,STC2
HALLMARK_UV_RESPONSE_UP	1.6e-02	7.8e-02	1311	158	16	23467	ASNS,CDC34,CHRNA5,CLCN2,COL2A1,ENO2,EPCAM,GAL,GRPEL1,NKX2-5,RPN1,SIGMAR1,SLC6A8,STIP1,TYRO3,WIZ

5.5.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	2889	200	143	23467	APOL6,ARID5B,B2M,BANK1,BATF2,BST2,BTG1,CASP1,CASP3,CASP4,CASP7,CASP8,CCL2,CCL5,CD274,CD40,CD69,CD74,CD86,CDKN1A,CFB,CFH,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL10,CXCL11,CXCL9,DDX58,DHX58,EIF4E3,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GBP4,GBP6,GCH1,GPR18,GZMA,HERC6,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,ICAM1,IDO1,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFNAR2,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF2,IRF4,IRF7,IRF8,IRF9,ISG20,ITGB7,JAK2,KLRK1,LAP3,LCP2,LY6E,LYSMD2,MARCH1,MVP,MX1,MX2,NLRC5,NMI,NOD1,OAS2,OAS3,OASL,OGFR,P2RY14,PARP12,PARP14,PDE4B,PLSCR1,PML,PNP,PSMA2,PSMB10,PSMB8,PSMB9,PSME1,PSME2,PTPN6,RBCK1,RIPK1,RIPK2,RNF31,RSAD2,RTP4,SAMD9L,SAMHD1,SECTM1,SELP,SERPING1,SLAMF7,SLC25A28,SOD2,SP110,ST8SIA4,STAT1,STAT2,STAT3,STAT4,TAP1,TAPBP,TDRD7,TNFSF10,TRAFD1,TRIM14,TRIM21,TRIM26,TXNIP,UBE2L6,USP18,VAMP5,VAMP8,VCAM1,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	2889	200	125	23467	B2M,C2,CAPG,CCL19,CCL2,CCL22,CCL4,CCL5,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD7,CD74,CD79A,CD80,CD86,CD8A,CD8B,CD96,CFP,CRTAM,CSF1,CSK,CTSS,CXCL13,CXCL9,CXCR3,ETS1,FAS,FASLG,FCGR2B,FGR,GBP2,GCNT1,GLMN,GPR65,GZMA,GZMB,HCLS1,HDAC9,HLA-A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICAM1,ICOSLG,IFNAR2,IFNG,IFNGR1,IGSF6,IKBKB,IL10,IL12A,IL12B,IL12RB1,IL13,IL15,IL16,IL18RAP,IL2,IL2RA,IL2RB,IL2RG,IL4,IL4R,IL7,IRF4,IRF7,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LTB,LY75,LY86,LYN,MAP4K1,NCF4,NCK1,NCR1,NLRP3,NOS2,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,RIPK2,SIT1,SPI1,SRGN,ST8SIA4,STAB1,STAT1,STAT4,TAP1,TAP2,TAPBP,TLR1,TLR2,TLR3,TLR6,TRAF2,TRAT1,WARS,WAS,ZAP70
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	2889	97	76	23467	B2M,BATF2,BST2,CASP1,CASP8,CCRL2,CD74,CMPK2,CNP,CSF1,CXCL10,CXCL11,DHX58,EPSTI1,GBP2,GBP4,HERC6,HLA-C,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IL15,IL4R,IL7,IRF1,IRF2,IRF7,IRF9,ISG20,LAMP3,LAP3,LPAR6,LY6E,MOV10,MX1,NCOA7,NMI,NUB1,OASL,OGFR,PARP12,PARP14,PARP9,PLSCR1,PSMB8,PSMB9,PSME1,PSME2,RIPK2,RNF31,RSAD2,RTP4,SAMD9,SAMD9L,SELL,SLC25A28,SP110,STAT2,TAP1,TDRD7,TMEM140,TRAFD1,TRIM14,TRIM21,TRIM26,TRIM5,TXNIP,UBA7,UBE2L6,USP18,WARS
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	2889	200	82	23467	APOBEC3F,APOBEC3G,C1QA,C1QC,C2,C3,CASP1,CASP10,CASP3,CASP4,CASP5,CASP7,CASP9,CCL5,CD40LG,CD46,CD59,CFB,CFH,CP,CPM,CR1,CR2,CTSC,CTSD,CTSH,CTSO,CTSS,DOCK10,DOCK4,DUSP5,F5,FCER1G,FCN1,FDX1,FYN,GATA3,GCA,GMFB,GNG2,GNGT2,GP1BA,GRB2,GZMA,GZMB,GZMK,IRF1,IRF2,IRF7,ITGAM,JAK2,KLKB1,KYNU,LAP3,LCK,LCP2,LGALS3,LGMN,LTA4H,LTF,LYN,PDP1,PIK3CG,PIK3R5,PLA2G7,PLEK,PLSCR1,PRCP,PRSS36,PSMB9,RABIF,RASGRP1,RHOG,S100A9,SERPINA1,SERPING1,SH2B3,SPOCK2,STX4,USP15,USP16,WAS
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	2889	200	82	23467	BST2,BTG2,C3AR1,CCL2,CCL20,CCL22,CCL5,CCR7,CCRL2,CD14,CD40,CD48,CD69,CD82,CDKN1A,CMKLR1,CSF1,CSF3R,CXCL10,CXCL11,CXCL9,CXCR6,CYBB,EBI3,FPR1,GCH1,GP1BA,GPR132,GPR183,ICAM1,ICAM4,ICOSLG,IFNAR1,IL10,IL10RA,IL12B,IL15,IL15RA,IL18R1,IL18RAP,IL2RB,IL4R,IRF1,IRF7,KCNA3,KCNJ2,LAMP3,LCK,LCP2,LTA,LY6E,LYN,MEFV,MEP1A,NLRP3,NMI,OSM,P2RX7,PDE4B,PIK3R5,PTGER4,RASGRP1,RGS1,RHOG,RIPK2,RNF144B,RTP4,SCARF1,SELE,SELL,SEMA4D,SLAMF1,SLC31A2,STAB1,TACR1,TAPBP,TLR1,TLR2,TLR3,TNFRSF1B,TNFRSF9,TNFSF10
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	2889	87	39	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CSF1,CSF2RB,CSF3R,CXCL10,CXCL11,CXCL13,CXCL9,EBI3,FAS,GRB2,HMOX1,IFNAR1,IFNGR1,IL12RB1,IL15RA,IL18R1,IL2RA,IL2RG,IL4R,IL7,IRF1,IRF9,ITGA4,LTB,MAP3K8,PIK3R5,PLA2G2A,STAM2,STAT1,STAT2,STAT3,TLR2,TNFRSF1B,TYK2
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	2889	200	64	23467	ABCB1,AGER,AMACR,ANXA4,BATF,BATF3,CAPG,CAPN3,CASP3,CCR4,CD48,CD79B,CD86,CDC42SE2,CISH,CSF1,CST7,CTLA4,CXCL10,DHRS3,EOMES,FAM126B,FGL2,FLT3LG,GALM,GBP4,GLIPR2,GPR65,ICOS,IFNGR1,IKZF2,IKZF4,IL10,IL10RA,IL13,IL18R1,IL2RA,IL2RB,IL4R,IRF4,IRF8,ITGAE,LTB,MAP3K8,MUC1,NFKBIZ,PLSCR1,PNP,RHOH,SELL,SELP,SERPINB6,SHE,SLC39A8,SMPDL3A,SYT11,TLR7,TNFRSF1B,TNFRSF4,TNFRSF8,TNFRSF9,TNFSF10,TRAF1,XBP1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	2889	200	63	23467	ABCB1,ACE,ADAM8,ADAMDEC1,BIRC3,C3AR1,CAB39L,CBR4,CCL20,CD37,CFB,CFH,CLEC4A,CMKLR1,CROT,CTSS,CXCL10,CXCR4,DOCK2,ENG,EPB41L3,ETS1,FBXO4,FCER1G,FUCA1,GADD45G,GLRX,GYPC,HDAC9,HSD11B1,ID2,IKZF1,IL10RA,IL2RG,IL33,IRF8,ITGB2,LAPTM5,LAT2,LCP1,LY96,MAP4K1,MPZL2,MTMR10,MYCN,PDCD1LG2,PECAM1,PLEK2,PLVAP,PRDM1,PSMB8,SATB1,SERPINA3,SLPI,ST6GAL1,TFPI,TLR8,TMEM176A,TMEM176B,TNFRSF1B,TPH1,TRAF1,VWA5A
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	2889	200	58	23467	BCL2A1,BIRC2,BIRC3,BTG1,BTG2,CCL2,CCL20,CCL4,CCL5,CCRL2,CD69,CD80,CDKN1A,CEBPD,CFLAR,CSF1,CXCL10,CXCL11,DDX58,DRAM1,DUSP4,DUSP5,GCH1,GPR183,ICAM1,ICOSLG,ID2,IER2,IFIH1,IFIT2,IL12B,IL15RA,IRF1,JUNB,KLF2,KYNU,LITAF,MAP3K8,NFKB2,NFKBIE,NINJ1,NR4A2,NR4A3,PDE4B,PLEK,PTGER4,RIPK2,RNF19B,SAT1,SERPINB8,SOD2,STAT5A,TANK,TAP1,TLR2,TNFAIP8,TNFRSF9,TRAF1
HALLMARK_P53_PATHWAY	2.0e-07	1.2e-06	2889	200	51	23467	APAF1,BAK1,BTG1,BTG2,CASP1,CCNG1,CD82,CDKN1A,CDKN2AIP,CGRRF1,CTSD,CYFIP2,DDB2,DEF6,DRAM1,EPS8L2,ERCC5,FAS,FBXW7,FUCA1,HEXIM1,HMOX1,IFI30,ISCU,KIF13B,LRMP,MDM2,NINJ1,NOTCH1,PCNA,POLH,PPM1D,RCHY1,RETSAT,RNF19B,RPS27L,SAT1,SESN1,SLC35D1,STOM,TAP1,TCN2,TM7SF3,TOB1,TP53,TRAFD1,TXNIP,VAMP8,VWA5A,WWP1,XPC
HALLMARK_APOPTOSIS	5.0e-07	2.5e-06	2889	161	43	23467	ANXA1,BCL2L11,BIRC3,BMF,BTG2,CASP1,CASP3,CASP4,CASP7,CASP8,CASP9,CD14,CD2,CD69,CDKN1A,CDKN1B,CFLAR,CYLD,DNAJA1,DPYD,FAS,FASLG,GCH1,HGF,HMOX1,IFNGR1,IRF1,ISG20,LGALS3,MADD,NEFH,PLCB2,PMAIP1,PRF1,PSEN2,RETSAT,RNASEL,SAT1,SATB1,SOD2,TAP1,TNFSF10,TXNIP
HALLMARK_XENOBIOTIC_METABOLISM	3.5e-06	1.5e-05	2889	200	48	23467	ABCD2,ACO2,ACOX1,ACOX3,ACP2,ACSM1,ADH5,ALDH9A1,AOX1,AP4B1,ATOH8,CCL25,CFB,CNDP2,CROT,CSAD,CYFIP2,CYP27A1,CYP2E1,CYP2J2,DHRS1,DHRS7,ESR1,ETFDH,FAS,FMO3,GCH1,HMOX1,HSD11B1,ID2,IGF1,IRF8,KYNU,LPIN2,MAN1A1,MAOA,NDRG2,NINJ1,PSMB10,PTGDS,RETSAT,SAR1B,SERTAD1,SLC35D1,TMBIM6,TMEM176B,UPB1,VNN1
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.3e-04	5.1e-04	2889	105	27	23467	ACTR2,ARPC3,CAB39L,CDKN1A,CDKN1B,CXCR4,DAPP1,FASLG,GNA14,GRB2,IL2RG,IL4,IRAK4,ITPR2,LCK,NCK1,NOD1,PIK3R3,PRKCB,RAC1,RIPK1,SLA,STAT2,TRAF2,UBE2D3,VAV3,YWHAB
HALLMARK_COAGULATION	6.0e-04	2.1e-03	2889	138	31	23467	A2M,ANXA1,APOC2,C1QA,C2,C3,C8G,CAPN2,CASP9,CFB,CFH,CFI,CTSE,CTSH,CTSO,FYN,GP1BA,ISCU,KLKB1,LGMN,LTA4H,MEP1A,P2RY1,PECAM1,PLEK,RABIF,RAC1,SERPINA1,SERPING1,TF,VWF
HALLMARK_HEME_METABOLISM	6.7e-04	2.2e-03	2889	200	41	23467	ACP5,ADIPOR1,AQP3,ATG4A,BMP2K,BTG2,C3,CAST,CCDC28A,CIR1,CLIC2,CPOX,CTSE,DCAF11,EPB41,ERMAP,EZH1,FBXO9,GYPC,GYPE,HBB,ICAM4,KAT2B,KEL,LMO2,LPIN2,LRP10,MARCH2,MOCOS,MPP1,NCOA4,OPTN,PDZK1IP1,RNF19A,SELENBP1,SPTA1,SYNJ1,TMEM9B,UCP2,USP15,YPEL5
HALLMARK_BILE_ACID_METABOLISM	9.5e-04	3.0e-03	2889	112	26	23467	ABCA5,ABCA6,ABCA8,ABCA9,ABCD2,ABCD3,ACSL5,ALDH9A1,AMACR,BBOX1,CH25H,CROT,CYP27A1,GSTK1,HSD17B4,HSD3B7,IDH2,LCK,LIPE,NR3C2,OPTN,PAOX,PEX1,PEX6,RETSAT,SCP2
HALLMARK_FATTY_ACID_METABOLISM	5.6e-03	1.6e-02	2889	158	31	23467	ACADM,ACO2,ACOX1,ACSL5,ACSM3,ALDH9A1,CD1D,CPOX,DECR1,ETFDH,GLUL,GSTZ1,HADHB,HCCS,HIBCH,HPGD,HSD17B4,HSDL2,IL4I1,LTC4S,MAOA,MCEE,MDH1,MGLL,NBN,PSME1,RETSAT,SERINC1,UBE2L6,VNN1,YWHAH
HALLMARK_PEROXISOME	7.4e-03	2.1e-02	2889	104	22	23467	ABCB1,ABCB4,ABCD2,ABCD3,ACOX1,ACSL5,ALDH9A1,DHRS3,GSTK1,HSD17B4,HSD3B7,IDH2,MVP,PEX11B,PEX2,PEX6,RETSAT,SCP2,SOD2,STS,VPS4B,YWHAH
HALLMARK_ADIPOGENESIS	1.2e-02	3.2e-02	2889	200	36	23467	ACADM,ACO2,ACOX1,ADCY6,ADIPOQ,AGPAT3,BCKDHA,BCL2L13,C3,CCNG2,CDKN2C,CMPK1,COQ5,CYP4B1,DECR1,DHRS7,DHRS7B,DNAJB9,DNAJC15,ELMOD3,ENPP2,HIBCH,IDH3A,IFNGR1,LIPE,LTC4S,MGLL,NDUFA5,PPM1B,RETSAT,SCP2,STAT5A,STOM,TANK,TOB1,UCP2
HALLMARK_APICAL_SURFACE	3.8e-02	9.6e-02	2889	44	10	23467	AKAP7,ATP6V0A4,CD160,GATA3,GHRL,IL2RB,IL2RG,LYN,MAL,SCUBE1

5.6 PRAD

5.6.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	1392	200	108	23467	AK2,ASF1B,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BUB1B,CCNB2,CCNE1,CDC20,CDC25B,CDCA3,CDCA8,CDK1,CDK4,CDKN2A,CDKN2C,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DCLRE1B,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,E2F8,ESPL1,EXOSC8,EZH2,GINS1,GINS3,GINS4,H2AFX,H2AFZ,HELLS,HMGB2,HMGB3,HMMR,HNRNPD,KIF18B,KIF2C,KIF4A,KPNA2,LIG1,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MXD3,MYBL2,NAA38,NASP,NCAPD2,NME1,NUP107,PA2G4,PCNA,PHF5A,PLK1,PLK4,POLA2,POLD1,PPP1R8,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD51AP1,RANBP1,RFC2,RNASEH2A,RPA3,RRM2,SLBP,SMC4,SNRPB,SPAG5,SPC24,SPC25,STMN1,SUV39H1,TACC3,TCF19,TIMELESS,TK1,TMPO,TOP2A,TRIP13,TUBB,TUBG1,UBE2S,UBE2T,UNG
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	1392	200	89	23467	AURKA,AURKB,BIRC5,BRCA2,BUB1,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25B,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN2C,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CHMP1A,CKS1B,CKS2,DTYMK,E2F1,E2F2,E2F3,E2F4,ESPL1,EXO1,EZH2,FANCC,FBXO5,GINS2,H2AFX,H2AFZ,HMGB3,HMGN2,HMMR,HNRNPD,KIF11,KIF15,KIF2C,KIF4A,KPNA2,LMNB1,MAD2L1,MARCKS,MCM2,MCM3,MCM5,MCM6,MKI67,MNAT1,MTF2,MYBL2,NASP,NDC80,NEK2,NUSAP1,PBK,PLK1,PLK4,POLA2,POLQ,PRC1,PTTG1,PTTG3P,RACGAP1,RAD54L,SLC7A5,SMC4,SNRPD1,STIL,STMN1,SUV39H1,TACC3,TMPO,TNPO2,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	1392	200	68	23467	ACP1,AIMP2,AP3S1,CBX3,CCNA2,CDC20,CDC45,CDK2,CDK4,CLNS1A,COPS5,COX5A,CSTF2,ERH,H2AFZ,HNRNPA2B1,HNRNPD,HPRT1,HSPE1,KARS,KPNA2,LDHA,LSM2,LSM7,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,NDUFAB1,NME1,NOP16,PA2G4,PCNA,POLE3,PPIA,PPM1G,PSMA1,PSMA2,PSMA6,PSMA7,PSMB2,PSMB3,PSMC6,PSMD1,PSMD14,PSMD3,PSMD7,PWP1,RANBP1,RFC4,RRM1,RRP9,SET,SNRPA1,SNRPB2,SNRPD1,SNRPD2,SNRPD3,SNRPG,SRM,SSB,SSBP1,TARDBP,TXNL4A,TYMS,VDAC1
HALLMARK_MTORC1_SIGNALING	0.0e+00	0.0e+00	1392	200	47	23467	ALDOA,ARPC5L,ASNS,AURKA,BUB1,CACYBP,CCNF,COPS5,DDIT3,DHFR,ELOVL6,ENO1,G6PD,GAPDH,GLA,HPRT1,HSPE1,IFI30,LDHA,MCM2,MCM4,NFKBIB,PDAP1,PLK1,PNP,POLR3G,PPIA,PRDX1,PSMA3,PSMC2,PSMC6,PSMD12,PSMD14,PSMG1,RRM2,RRP9,SEC11A,SLC7A5,STIP1,TMEM97,TOMM40,TPI1,TRIB3,TUBG1,TXNRD1,UNG,YKT6
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	1392	58	19	23467	AIMP2,CBX3,CDK4,HSPE1,LAS1L,MCM4,MCM5,NIP7,NOP16,PA2G4,PLK1,PLK4,PUS1,RCL1,RRP9,SRM,SUPV3L1,TMEM97,UNG
HALLMARK_DNA_REPAIR	0.0e+00	0.0e+00	1392	150	30	23467	ADRM1,ARL6IP1,BOLA2,CCNO,COX17,CSTF3,FEN1,GTF2A2,GUK1,HPRT1,LIG1,NME1,PCNA,PNP,POLA2,POLD1,POLR2F,POLR2H,RAD51,RALA,RFC2,RFC4,RFC5,RPA3,SAC3D1,STX3,TAF12,TAF9,TYMS,ZWINT
HALLMARK_OXIDATIVE_PHOSPHORYLATION	0.0e+00	1.0e-07	1392	200	35	23467	AIFM1,ATP6V0B,ATP6V1E1,BAX,COX17,COX5A,COX6A1,COX6C,COX7B,CYCS,FH,GRPEL1,HSD17B10,HTRA2,LDHA,MRPL11,MRPL15,NDUFA4,NDUFAB1,NDUFB3,NDUFB4,NDUFB6,NDUFC2,PDHA1,PHYH,POLR2F,SUPV3L1,TIMM10,TIMM50,TIMM8B,TOMM22,UQCR11,UQCRH,UQCRQ,VDAC1
HALLMARK_MITOTIC_SPINDLE	1.0e-07	5.0e-07	1392	199	33	23467	ANLN,ARL8A,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPF,DLGAP5,ECT2,ESPL1,FBXO5,KIF11,KIF15,KIF2C,KIF4A,KNTC1,LMNB1,MARCKS,NDC80,NEK2,NUSAP1,PIF1,PLK1,PRC1,RACGAP1,SAC3D1,SMC4,TOP2A,TPX2,TTK
HALLMARK_UV_RESPONSE_UP	6.0e-05	3.3e-04	1392	158	23	23467	ALDOA,ASNS,BTG1,CASP3,CCNE1,CDK2,CEBPG,EPCAM,FEN1,FGF18,GRPEL1,H2AFX,HMOX1,MAPK8IP2,PARP2,PDAP1,POLE3,POLR2H,PRPF3,RFC4,SHOX2,STIP1,YKT6
HALLMARK_GLYCOLYSIS	1.4e-04	6.4e-04	1392	200	26	23467	ALDOA,AURKA,B4GALT2,B4GALT4,CASP6,CDK1,CENPA,CLN6,DEPDC1,EFNA3,ENO1,G6PD,GALE,HMMR,IL13RA1,KIF20A,LDHA,NASP,PDK3,PPIA,SDC1,SPAG4,STMN1,TALDO1,TPI1,TXN
HALLMARK_SPERMATOGENESIS	1.4e-04	6.4e-04	1392	135	20	23467	AURKA,BUB1,CCNB2,CDK1,CDKN3,CNIH2,EZH2,IL12RB2,KIF2C,NAA11,NCAPH,NEK2,PARP2,PGK2,PSMG1,RFC4,SEPT4,STRBP,TALDO1,TTK
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.3e-03	5.5e-03	1392	105	15	23467	ARPC3,CDK1,CDK2,CDK4,CFL1,DDIT3,E2F1,HRAS,MAPKAP1,NFKBIB,NGF,NOD1,PFN1,TRAF2,TRIB3
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	2.1e-03	8.1e-03	1392	49	9	23467	CDKN2D,FTL,G6PD,HMOX2,LSP1,NDUFB4,PRDX1,TXN,TXNRD1
HALLMARK_ESTROGEN_RESPONSE_LATE	3.9e-03	1.4e-02	1392	200	22	23467	BATF,CDC20,CDC6,COX6C,DHRS2,FAM102A,GALE,GINS2,GLA,HPRT1,KIF20A,LLGL2,MDK,NMU,NXT1,PLK4,RBBP8,RNASEH2A,SLC7A5,STIL,TOP2A,TSPAN13
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	7.0e-03	2.3e-02	1392	113	14	23467	ASNS,BANF1,CEBPG,CKS1B,DDX10,EXOSC9,FUS,H2AFX,LSM1,LSM4,POP4,RRP9,SEC11A,SLC7A5
HALLMARK_APOPTOSIS	7.2e-03	2.3e-02	1392	161	18	23467	BAX,BRCA1,CASP3,CASP6,CASP8,CDC25B,CDK2,DAP3,DDIT3,HMGB2,HMOX1,IFNB1,PMAIP1,PPP2R5B,PPP3R1,SLC20A1,TOP2A,TSPO
HALLMARK_ADIPOGENESIS	2.9e-02	8.1e-02	1392	200	19	23467	AIFM1,AK2,ALDOA,APOE,CDKN2C,COX6A1,COX7B,ELOVL6,GRPEL1,MRPL15,MTCH2,NDUFAB1,PHYH,PPARG,RTN3,TALDO1,UBC,UQCR11,UQCRQ
HALLMARK_P53_PATHWAY	2.9e-02	8.1e-02	1392	200	19	23467	ABHD4,BAX,BTG1,CDKN2A,DDIT3,EI24,FGF13,HMOX1,HRAS,IFI30,PCNA,RHBDF2,S100A10,SDC1,TPRKB,TRAF4,TRIAP1,TRIB3,VDR

5.6.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_XENOBIOTIC_METABOLISM	1.0e-07	5.9e-06	1132	200	29	23467	ACOX1,ACOX2,ACP2,ALDH2,ALDH3A1,ALDH9A1,AOX1,ARG2,ATOH8,CAT,CBR1,CDO1,CYP27A1,DHRS1,ENTPD5,ETS2,F10,FBLN1,GABARAPL1,GCNT2,GSTM4,IGF1,IL1R1,MAOA,MPP2,PDK4,PTGDS,SLC1A5,SLC22A1
HALLMARK_ANDROGEN_RESPONSE	1.3e-06	3.1e-05	1132	100	18	23467	ALDH1A3,APPBP2,ARID5B,AZGP1,BMPR1B,CCND1,CENPN,GPD1L,IQGAP2,KLK2,KLK3,LIFR,NCOA4,PMEPA1,RAB4A,SORD,SPCS3,TMPRSS2
HALLMARK_MYOGENESIS	1.3e-05	2.2e-04	1132	200	25	23467	AGL,APP,CACNA1H,CACNG1,CKB,CKMT2,EFS,EIF4A2,ERBB3,FKBP1B,GPX3,HSPB8,IGF1,ITGB4,LDB3,MEF2D,MYH11,MYLK,NOS1,PICK1,PLXNB2,PRNP,PYGM,RYR1,SSPN
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.0e-04	1.0e-03	1132	200	23	23467	ABAT,CANT1,CBFA2T3,CCND1,CELSR1,GFRA1,GREB1,HSPB8,IGF1R,KRT13,KRT15,LRIG1,MPPED2,MSMB,P2RY2,PGR,RET,SEC14L2,SLC22A5,SULT2B1,THSD4,WFS1,ZNF185
HALLMARK_KRAS_SIGNALING_DN	1.0e-04	1.0e-03	1132	200	23	23467	ADRA2C,BMPR1B,CACNG1,CLDN8,CNTFR,CYP39A1,DLK2,EPHA5,GPRC5C,KRT13,KRT15,KRT4,KRT5,LFNG,LYPD3,NOS1,PDE6B,PDK2,PLAG1,RYR1,SIDT1,WNT16,ZBTB16
HALLMARK_APICAL_SURFACE	2.1e-04	1.8e-03	1132	44	9	23467	AKAP7,APP,ATP8B1,DCBLD2,GAS1,LYPD3,RHCG,SLC2A4,SRPX
HALLMARK_ADIPOGENESIS	2.8e-04	2.0e-03	1132	200	22	23467	ACADL,ACADS,ACOX1,ALDH2,ANGPT1,BCKDHA,CAT,CD302,DBT,EPHX2,FZD4,G3BP2,GPX3,HSPB8,ITIH5,LIFR,LIPE,MYLK,ORM1,QDPR,SLC1A5,SSPN
HALLMARK_UV_RESPONSE_DN	5.9e-04	3.7e-03	1132	144	17	23467	ARHGEF9,ATP2C1,CAP2,F3,IGF1R,IRS1,LPAR1,MAGI2,MT1E,NFIB,NR3C1,PLCB4,SLC7A1,SNAI2,SPOP,TGFBR3,WDR37
HALLMARK_ESTROGEN_RESPONSE_LATE	7.0e-04	3.9e-03	1132	200	21	23467	ACOX2,ALDH3A2,CCND1,CKB,CPE,EMP2,GJB3,HMGCS2,HSPA4L,HSPB8,IGSF1,KRT13,PGR,RET,SERPINA5,SLC22A5,SORD,ST6GALNAC2,SULT2B1,TRIM29,WFS1
HALLMARK_PANCREAS_BETA_CELLS	2.8e-03	1.4e-02	1132	40	7	23467	ABCC8,CHGA,DPP4,FOXO1,GCK,PAK3,SYT13
HALLMARK_FATTY_ACID_METABOLISM	4.1e-03	1.9e-02	1132	158	16	23467	ACADL,ACADS,ACOX1,ALDH3A1,ALDH3A2,ALDH9A1,AUH,BMPR1B,CBR1,GABARAPL1,HMGCS2,MAOA,MCEE,RDH11,SLC22A5,TP53INP2
HALLMARK_PROTEIN_SECRETION	6.5e-03	2.6e-02	1132	96	11	23467	ARFGEF2,CAV2,GALC,GBF1,M6PR,NAPG,SH3GL2,SNAP23,SSPN,STX12,TOM1L1
HALLMARK_HEDGEHOG_SIGNALING	7.0e-03	2.6e-02	1132	36	6	23467	CELSR1,CNTFR,ETS2,OPHN1,SLIT1,VEGFA
HALLMARK_BILE_ACID_METABOLISM	7.8e-03	2.6e-02	1132	112	12	23467	ABCA5,ABCA8,ALDH9A1,CAT,CYP27A1,CYP39A1,CYP7B1,EPHX2,LIPE,NUDT12,SLC23A1,SULT2B1
HALLMARK_KRAS_SIGNALING_UP	8.3e-03	2.6e-02	1132	200	18	23467	ALDH1A2,ALDH1A3,CPE,DCBLD2,HOXD11,IL33,KIF5C,PEG3,PLEK2,PRKG2,SATB1,SPON1,SPRY2,ST6GAL1,TMEM100,TRIB2,TSPAN7,VWA5A
HALLMARK_P53_PATHWAY	8.3e-03	2.6e-02	1132	200	18	23467	ABAT,ACVR1B,APP,CCNG1,CLCA2,ERCC5,GLS2,HSPA4L,ITGB4,MAPKAPK3,MDM2,PLXNB2,SERPINB5,TP63,TXNIP,VWA5A,ZBTB16,ZMAT3

5.7 KIRP

5.7.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.7.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.8 PAAD

5.8.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.8.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	1329	200	72	23467	B2M,CCL19,CCL2,CCL22,CCL5,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD40,CD40LG,CD7,CD74,CD79A,CD8A,CD8B,CD96,CFP,CRTAM,CSK,CTSS,CXCL13,CXCR3,FAS,FASLG,FCGR2B,FGR,GPR65,HCLS1,HLA-DMA,HLA-DMB,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICOSLG,IFNGR1,IL12RB1,IL16,IL18RAP,IL1B,IL27RA,IL2RB,IL2RG,IL4R,IRF4,IRF8,ITGAL,ITK,LCK,LCP2,LTB,LY86,LYN,MAP4K1,NCF4,PRKCB,PTPRC,SIT1,SPI1,STAB1,THY1,TLR1,TLR2,TRAT1,WAS,ZAP70
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	1329	200	47	23467	ARID5B,B2M,BANK1,C1R,C1S,CASP1,CCL2,CCL5,CD38,CD40,CD69,CD74,CFH,CIITA,CMKLR1,CSF2RB,FAS,GPR18,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,IFITM2,IL10RA,IL18BP,IL2RB,IL4R,IRF2,IRF4,IRF5,IRF8,ITGB7,LCP2,NLRC5,P2RY14,PELI1,PLA2G4A,SELP,SERPING1,SLAMF7,SOCS3,SP110,SSPN,ST3GAL5,TNFAIP2,VCAM1,ZBP1
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	1329	200	46	23467	BDKRB1,BTG2,CCL17,CCL2,CCL22,CCL5,CCR7,CD40,CD48,CD69,CMKLR1,CSF3,CSF3R,CXCR6,EBI3,EDN1,GPC3,GPR132,ICOSLG,IL10RA,IL18RAP,IL1B,IL1R1,IL2RB,IL4R,LAMP3,LCK,LCP2,LPAR1,LTA,LYN,NMUR1,NOD2,PIK3R5,PTGIR,RAF1,RGS1,RNF144B,SCARF1,SELL,SEMA4D,SLAMF1,STAB1,TLR1,TLR2,TNFRSF1B
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	1329	200	40	23467	ADRA2B,APOBEC3G,C1R,C1S,C3,CA2,CASP1,CASP10,CCL5,CD40LG,CFH,CPM,CR1,CSRP1,CTSC,CTSH,CTSS,DGKG,GNGT2,GZMK,IRF2,ITGAM,KCNIP2,KCNIP3,KYNU,L3MBTL4,LCK,LCP2,LTF,LYN,PDP1,PIK3R5,PLA2G4A,PLA2G7,PLEK,PRSS36,RAF1,SERPING1,USP15,WAS
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	1329	200	40	23467	BCL2A1,BCL6,BIRC3,BTG2,CCL2,CCL5,CD69,CEBPD,CFLAR,CXCL2,CXCL3,DUSP1,DUSP2,EDN1,FUT4,GEM,ICOSLG,IL1B,KLF2,KYNU,LITAF,MAP3K8,MCL1,NFE2L2,NINJ1,NR4A3,PLEK,PTX3,RHOB,SAT1,SERPINB8,SGK1,SOCS3,STAT5A,TLR2,TNFAIP2,TNFAIP8,TRAF1,ZC3H12A,ZFP36
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	1329	87	23	23467	ACVRL1,CD38,CNTFR,CSF2RB,CSF3R,CXCL13,CXCL3,EBI3,FAS,HMOX1,IFNGR1,IL12RB1,IL1B,IL1R1,IL2RG,IL4R,LTB,MAP3K8,PIK3R5,PLA2G2A,SOCS3,TLR2,TNFRSF1B
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	1.0e-07	1329	200	34	23467	ANXA4,BCL2,CA2,CAPN3,CCR4,CD48,CD79B,CTLA4,EMP1,GALM,GLIPR2,GPR65,ICOS,IFNGR1,IL10RA,IL2RB,IL4R,IRF4,IRF8,ITIH5,LTB,MAP3K8,NFKBIZ,PRKCH,PTH1R,RHOB,S100A1,SELL,SELP,SHE,SWAP70,TNFRSF18,TNFRSF1B,TRAF1
HALLMARK_XENOBIOTIC_METABOLISM	0.0e+00	2.0e-07	1329	200	33	23467	ACOX2,ADH1C,ALDH2,CA2,CAT,CES1,CYB5A,CYP27A1,CYP2E1,FAS,FBLN1,FBP1,FMO1,FMO3,GCKR,GSTM4,HMOX1,IGF1,IGFBP4,IL1R1,IRF8,KYNU,LCAT,NDRG2,NINJ1,PROS1,PTGDS,SLC12A4,SLC46A3,SLC6A12,TDO2,VNN1,XDH
HALLMARK_MYOGENESIS	1.0e-06	5.7e-06	1329	200	30	23467	APOD,BDKRB2,CASQ1,CFD,CHRNA1,CKMT2,COL15A1,COX7A1,FABP3,FXYD1,HRC,HSPB8,IGF1,IGFBP7,ITGA7,LAMA2,LDB3,LSP1,MEF2C,MRAS,MYBPC3,MYBPH,MYL3,NOTCH1,PTGIS,PYGM,SOD3,SSPN,TNNT2,TNNT3
HALLMARK_KRAS_SIGNALING_UP	3.1e-06	1.5e-05	1329	200	29	23467	APOD,BIRC3,CA2,CAB39L,CD37,CFH,CMKLR1,CTSS,DOCK2,EMP1,F13A1,GYPC,IL10RA,IL1B,IL2RG,IRF8,LY96,MAP4K1,MPZL2,NGF,PECAM1,PIGR,SERPINA3,SPARCL1,SPON1,ST6GAL1,TNFRSF1B,TNNT2,TRAF1
HALLMARK_COAGULATION	2.9e-04	1.3e-03	1329	138	19	23467	ACOX2,C1R,C1S,C3,CFD,CFH,CFI,CSRP1,CTSH,ISCU,MMP2,PECAM1,PLEK,PROS1,RAPGEF3,S100A1,SERPING1,TF,THBD
HALLMARK_APOPTOSIS	3.1e-04	1.3e-03	1329	161	21	23467	BIRC3,BTG2,CASP1,CD2,CD38,CD69,CFLAR,DCN,EMP1,FAS,FASLG,FEZ1,HMOX1,IFNGR1,IL1B,MCL1,MMP2,PEA15,PLCB2,RHOB,SAT1
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	4.2e-04	1.6e-03	1329	200	24	23467	ABI3BP,DAB2,DCN,ECM2,EFEMP2,ELN,FAS,FBLN1,FBLN2,FBLN5,FZD8,GEM,GLIPR1,IGFBP4,LAMA2,MGP,MMP2,PTX3,RHOB,SAT1,SLIT3,THY1,VCAM1,WIPF1
HALLMARK_ADIPOGENESIS	2.2e-03	8.0e-03	1329	200	22	23467	ALDH2,ANGPT1,BCL6,C3,CAT,COL15A1,FABP4,HADH,HSPB8,IFNGR1,ITGA7,ITIH5,LIFR,LTC4S,OMD,PHLDB1,PQLC3,SPARCL1,SSPN,STAT5A,STOM,SULT1A1
HALLMARK_APICAL_SURFACE	3.0e-03	9.9e-03	1329	44	8	23467	IL2RB,IL2RG,LYN,MAL,MDGA1,SLC2A4,SRPX,THY1
HALLMARK_KRAS_SIGNALING_DN	4.8e-03	1.5e-02	1329	200	21	23467	ADRA2C,BTG2,CD207,CD40LG,CNTFR,COPZ2,EDN1,EFHD1,KCNMB1,LGALS7,MYOT,NTF3,PDCD1,PDE6B,SGK1,SLC12A3,SOX10,TCF7L1,TCL1A,THNSL2,WNT16
HALLMARK_NOTCH_SIGNALING	8.3e-03	2.4e-02	1329	32	6	23467	ARRB1,DTX1,FZD7,NOTCH1,NOTCH3,ST3GAL6
HALLMARK_INTERFERON_ALPHA_RESPONSE	8.6e-03	2.4e-02	1329	97	12	23467	B2M,C1S,CASP1,CD74,IFITM2,IL4R,IRF2,LAMP3,LPAR6,SELL,SP110,UBA7
HALLMARK_APICAL_JUNCTION	9.8e-03	2.6e-02	1329	200	20	23467	ARHGEF6,ARPC2,CLDN15,EVL,HADH,ICAM2,MMP2,MPZL2,MSN,NEXN,NLGN3,PARD6G,PECAM1,PTPRC,RAC2,SHC1,SYK,THY1,TRAF1,VCAM1
HALLMARK_ANDROGEN_RESPONSE	1.1e-02	2.7e-02	1329	100	12	23467	ADAMTS1,ARID5B,B2M,CAMKK2,DBI,ELK4,IQGAP2,LIFR,SAT1,SGK1,STEAP4,TNFAIP8

5.9 SARC

5.9.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	1179	200	101	23467	ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BUB1B,CBX5,CCNB2,CDC20,CDC25A,CDC25B,CDCA3,CDCA8,CDK1,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,DCLRE1B,DEK,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,E2F8,ESPL1,EZH2,GINS1,GINS3,GINS4,GSPT1,H2AFX,H2AFZ,HELLS,HMGB3,HMMR,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LIG1,LMNB1,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MXD3,MYBL2,NCAPD2,NUDT21,NUP107,NUP153,NUP205,PCNA,PLK1,PLK4,POLA2,POLD1,POLE,PRIM2,PTTG1,RACGAP1,RAD51AP1,RANBP1,RFC2,RFC3,RNASEH2A,RPA3,RRM2,SMC1A,SMC4,SMC6,SPAG5,SPC24,SPC25,SSRP1,SUV39H1,TACC3,TCF19,TIMELESS,TK1,TMPO,TOP2A,TRIP13,TUBB,UBE2S,UBE2T,USP1
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	1179	200	93	23467	ATF5,AURKA,AURKB,BIRC5,BRCA2,BUB1,BUB3,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC25B,CDC45,CDC6,CDC7,CDK1,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CKS1B,CKS2,DBF4,DKC1,E2F1,E2F2,ESPL1,EXO1,EZH2,FANCC,FBXO5,G3BP1,GINS2,GSPT1,H2AFX,H2AFZ,HIRA,HMGB3,HMMR,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MYBL2,NDC80,NEK2,NOTCH2,NUP50,NUSAP1,ODF2,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,PTTG3P,RACGAP1,RAD54L,RBL1,SLC7A5,SMAD3,SMC1A,SMC2,SMC4,STIL,SUV39H1,TACC3,TMPO,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	1179	199	48	23467	ANLN,ARF6,ARHGEF2,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDC42EP2,CDK1,CENPE,CENPF,CENPJ,CKAP5,DLGAP5,DOCK4,DYNC1H1,ECT2,EPB41L2,ESPL1,FBXO5,HDAC6,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KNTC1,LMNB1,NDC80,NEK2,NOTCH2,NUSAP1,PIF1,PLK1,PRC1,PXN,RACGAP1,SASS6,SMC1A,SMC4,SPTBN1,TOP2A,TPX2,TRIO,TTK
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	1179	200	33	23467	ANPEP,BMP1,COL5A1,CXCL1,DAB2,DCN,DKK1,EMP3,FAP,FBLN2,FBN1,FSTL1,LOX,LOXL1,LOXL2,LRP1,LUM,MCM7,MMP14,NID2,NOTCH2,NT5E,PCOLCE2,PLAUR,PLOD3,SGCG,SLIT2,SNAI2,SNTB1,SPP1,TIMP3,VEGFA,VEGFC
HALLMARK_MTORC1_SIGNALING	1.0e-07	7.0e-07	1179	200	30	23467	ACLY,ACSL3,ADD3,AURKA,BCAT1,BUB1,CCNF,CDC25A,CTSC,EDEM1,ELOVL6,GMPS,HMGCR,IFI30,MCM2,MCM4,NUP205,PGK1,PHGDH,PLK1,POLR3G,PSAT1,PSMD12,RRM2,SLC1A5,SLC7A11,SLC7A5,STC1,TRIB3,WARS
HALLMARK_MYC_TARGETS_V1	1.0e-07	7.0e-07	1179	200	30	23467	AP3S1,BUB3,CCNA2,CDC20,CDC45,CDK2,CSTF2,DEK,G3BP1,GSPT1,H2AFZ,HNRNPA2B1,IARS,KPNA2,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,PCNA,PGK1,RANBP1,RRM1,SF3B3,SNRPA1,SRPK1,TYMS,USP1,XPOT
HALLMARK_COMPLEMENT	8.8e-06	6.3e-05	1179	200	26	23467	ADAM9,ANXA5,C2,CASP5,CASP7,CR1,CTSC,CXCL1,DOCK4,DPP4,FCER1G,FYN,GPD2,KIF2A,KYNU,LAMP2,LIPA,LRP1,MMP14,PDP1,PIK3CG,PLA2G4A,PLA2G7,PLAUR,PRDM4,SERPINB2
HALLMARK_INFLAMMATORY_RESPONSE	7.1e-05	4.4e-04	1179	200	24	23467	ADM,ADORA2B,ATP2B1,BDKRB1,CD70,CSF1,CYBB,DCBLD2,EMP3,FPR1,HAS2,MARCO,MMP14,MSR1,OSM,PLAUR,RIPK2,ROS1,SLC31A1,SLC31A2,STAB1,TNFAIP6,TNFSF9,TPBG
HALLMARK_GLYCOLYSIS	1.9e-04	1.1e-03	1179	200	23	23467	ADORA2B,AURKA,B4GALT1,CDK1,CENPA,COL5A1,DCN,DEPDC1,FUT8,HMMR,HS6ST2,KDELR3,KIF20A,KIF2A,NANP,NT5E,P4HA2,PGK1,PMM2,STC1,TPBG,TPST1,VEGFA
HALLMARK_DNA_REPAIR	5.5e-04	2.7e-03	1179	150	18	23467	ARL6IP1,CANT1,CCNO,FEN1,LIG1,NUDT21,PCNA,POLA2,POLD1,PRIM1,RAD51,RFC2,RFC3,RFC5,RPA3,SSRP1,TYMS,ZWINT
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.6e-03	7.3e-03	1179	113	14	23467	CKS1B,DKC1,EDEM1,EIF2AK3,EXOSC10,H2AFX,IARS,KDELR3,KHSRP,PSAT1,SLC7A5,TARS,VEGFA,XPOT
HALLMARK_ESTROGEN_RESPONSE_LATE	5.9e-03	2.3e-02	1179	200	19	23467	ADD3,CDC20,CDC6,GINS2,KIF20A,KLF4,MICB,PAPSS2,PKP3,PLAC1,PLK4,PTGES,RNASEH2A,SLC7A5,STIL,TOP2A,TPBG,UGDH,XRCC3
HALLMARK_UV_RESPONSE_DN	6.0e-03	2.3e-02	1179	144	15	23467	ADD3,ADORA2B,ANXA2,ATP2B1,ATRN,DAB2,FYN,GCNT1,HAS2,LTBP1,NOTCH2,RUNX1,SMAD3,SNAI2,TFPI
HALLMARK_SPERMATOGENESIS	8.0e-03	2.8e-02	1179	135	14	23467	AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,DBF4,EZH2,KIF2C,NCAPH,NEK2,PRKAR2A,TOPBP1,TTK
HALLMARK_ANGIOGENESIS	8.5e-03	2.8e-02	1179	36	6	23467	FSTL1,LUM,S100A4,SPP1,STC1,VEGFA
HALLMARK_APICAL_SURFACE	2.2e-02	6.8e-02	1179	44	6	23467	ADAM10,B4GALT1,BRCA1,DCBLD2,PLAUR,SRPX
HALLMARK_TNFA_SIGNALING_VIA_NFKB	2.4e-02	7.1e-02	1179	200	17	23467	ATP2B1,B4GALT1,CD80,CSF1,CXCL1,GFPT2,KLF4,KYNU,PHLDA1,PLAUR,RIPK2,SERPINB2,SERPINB8,SMAD3,TNFAIP6,TNFSF9,VEGFA

5.9.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYOGENESIS	0.0e+00	0.00000	2528	200	67	23467	ACHE,ACTC1,AEBP1,AGL,APLNR,APOD,BAG1,CACNA1H,CASQ1,CASQ2,CDKN1A,CKMT2,COL4A2,COX7A1,CRYAB,CTF1,DES,DMPK,EIF4A2,FST,FXYD1,GABARAPL2,HDAC5,HSPB2,HSPB8,IGFBP7,ITGA7,KCNH2,LDB3,MAPK12,MAPRE3,MEF2A,MEF2C,MEF2D,MRAS,MYH11,MYLK,MYO1C,MYOM1,MYOM2,MYOZ1,NCAM1,NOTCH1,NQO1,PDLIM7,PFKM,PICK1,PLXNB2,PPFIA4,PRNP,PSEN2,PYGM,REEP1,SCHIP1,SGCA,SH2B1,SMTN,SORBS1,SPEG,SSPN,ST5,SVIL,SYNGR2,TAGLN,TEAD4,TPD52L1,TPM2
HALLMARK_OXIDATIVE_PHOSPHORYLATION	0.0e+00	0.00000	2528	200	63	23467	ACAA1,ACADVL,ACO2,ATP6V0E1,ATP6V1D,ATP6V1E1,ATP6V1H,BDH2,COX15,COX17,COX4I1,COX5B,COX6C,COX7A2,COX7A2L,COX7C,CYB5R3,CYC1,ECH1,HADHA,HADHB,IDH2,ISCA1,ISCU,LDHB,MAOB,MDH1,MGST3,MRPL15,MRPL35,NDUFA2,NDUFA3,NDUFA4,NDUFA5,NDUFA7,NDUFA8,NDUFB1,NDUFB4,NDUFB5,NDUFB8,NDUFC1,NDUFS2,NDUFS4,NDUFS8,NDUFV2,PDHB,PDHX,PHB2,SDHD,SLC25A11,SLC25A12,SLC25A20,SLC25A4,SUCLG1,SURF1,TIMM8B,TIMM9,UQCRB,UQCRC1,UQCRC2,UQCRH,VDAC2,VDAC3
HALLMARK_ADIPOGENESIS	1.2e-06	0.00002	2528	200	45	23467	ACO2,ACOX1,ALDH2,CCNG2,CD151,CHCHD10,CMBL,COQ9,CYC1,DGAT1,DHRS7,DNAJB9,DRAM2,ECH1,EPHX2,ESYT1,HADH,HIBCH,HSPB8,ITGA7,ITIH5,JAGN1,MGST3,MRAP,MRPL15,MTCH2,MYLK,NDUFA5,PDCD4,PIM3,PPM1B,PREB,PTGER3,RAB34,REEP5,RTN3,SLC27A1,SNCG,SORBS1,SPARCL1,SSPN,SUCLG1,TOB1,UQCRC1,VEGFB
HALLMARK_ESTROGEN_RESPONSE_LATE	3.8e-05	0.00038	2528	200	41	23467	ACOX2,ANXA9,ASS1,ATP2B4,BAG1,BCL2,CD9,CDH1,CELSR2,CHST8,COX6C,CPE,CXCL12,CXCL14,HR,HSPB8,IDH2,KRT19,LLGL2,LSR,LTF,MAPT,MOCS2,NAB2,OLFM1,PCP4,PDCD4,PDLIM3,PLXNB1,PTGER3,SCUBE2,SEMA3B,SLC24A3,SLC29A1,TJP3,TOB1,TPD52L1,TPSAB1,TSTA3,UNC13B,WFS1
HALLMARK_P53_PATHWAY	3.8e-05	0.00038	2528	200	41	23467	ABAT,ANKRA2,BLCAP,BTG2,CCND2,CCNG1,CD81,CDKN1A,CGRRF1,CTSF,CYFIP2,DDB2,DGKA,EI24,EPHX1,EPS8L2,FAM162A,FDXR,FGF13,GM2A,H2AFJ,HEXIM1,ISCU,JAG2,LDHB,MDM2,MXD4,NOTCH1,PHLDA3,PLXNB2,PRMT2,PVT1,RPL18,RPS27L,SERTAD3,SESN1,TOB1,TP53,TPD52L1,TSC22D1,VWA5A
HALLMARK_ESTROGEN_RESPONSE_EARLY	7.3e-04	0.00610	2528	200	37	23467	ABAT,AKAP1,ANXA9,BAG1,BCL11B,BCL2,CALB2,CBFA2T3,CELSR2,CXCL12,ENDOD1,ESRP2,GREB1,HR,HSPB8,IGF1R,INPP5F,KRT19,MAPT,MUC1,NADSYN1,OLFM1,PDLIM3,PEX11A,RAB17,REEP1,RHOD,SEMA3B,SLC1A1,SLC24A3,SVIL,TGIF2,TJP3,TOB1,TPD52L1,WFS1,ZNF185
HALLMARK_UV_RESPONSE_UP	1.4e-03	0.01000	2528	158	30	23467	ACAA1,APOM,BTG2,CDKN1C,CLTB,CNP,CREG1,CYB5R1,DGAT1,DLG4,E2F5,EIF2S3,EPHX1,GRINA,HSPA2,KCNH2,KLHDC3,MRPL23,NTRK3,NXF1,OLFM1,PDLIM3,PPP1R2,PRKACA,RAB27A,RHOB,RXRB,SLC25A4,STK25,TUBA4A
HALLMARK_HEME_METABOLISM	4.9e-03	0.03000	2528	200	34	23467	ALAD,ALDH1L1,ATP6V0A1,BTG2,CA1,DCAF11,ENDOD1,EZH1,FN3K,HBD,HEBP1,ISCA1,KEL,LRP10,MARCH2,MGST3,MXI1,NCOA4,PDZK1IP1,PIGQ,PPOX,PQLC1,PRDX2,RBM38,RBM5,RNF123,SIDT2,SPTB,TNS1,TSPO2,UBAC1,UROS,XK,YPEL5
HALLMARK_FATTY_ACID_METABOLISM	1.0e-02	0.05800	2528	158	27	23467	ACAA1,ACADVL,ACO2,ACOT2,ACOX1,ALAD,AOC3,CRYZ,D2HGDH,ECH1,EPHX1,GRHPR,HADH,HADHB,HIBCH,HMGCL,MCEE,MDH1,METAP1,PCBD1,PDHB,SDHD,SERINC1,SUCLG1,SUCLG2,TP53INP2,UROS

5.10 CESC

5.10.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.10.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0000	244	200	17	23467	CCL19,CD247,CD28,CD3E,CD3G,CD79A,CD96,CTSS,HLA-E,IL16,IL18RAP,IL2RB,IL7,IRF4,ITK,LYN,ZAP70
HALLMARK_INTERFERON_GAMMA_RESPONSE	4.9e-05	0.0012	244	200	10	23467	CFH,DHX58,IFI44,IL2RB,IL7,IRF4,KLRK1,OAS2,SELP,TRIM14
HALLMARK_INTERFERON_ALPHA_RESPONSE	7.0e-05	0.0012	244	97	7	23467	DHX58,IFI44,IL7,LPAR6,PARP9,SELL,TRIM14
HALLMARK_IL2_STAT5_SIGNALING	5.1e-03	0.0630	244	200	7	23467	CD79B,IL2RB,IRF4,RHOH,SELL,SELP,TNFRSF21

5.11 COAD

5.11.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.8e-05	0.00092	1916	42	13	23467	AXIN1,AXIN2,CTNNB1,DVL2,HDAC11,HDAC2,HDAC5,KAT2A,NKD1,NOTCH1,PTCH1,TCF7,WNT5B
HALLMARK_BILE_ACID_METABOLISM	6.9e-04	0.01700	1916	112	20	23467	ACSL5,AMACR,CH25H,CYP27A1,CYP39A1,HACL1,NEDD4,NR0B2,NR1I2,PEX16,PEX7,PHYH,PIPOX,PRDX5,RBP1,SERPINA6,SOAT2,SULT2B1,TFCP2L1,TTR
HALLMARK_PEROXISOME	1.8e-03	0.03000	1916	104	18	23467	ABCC5,ACOT8,ACOX1,ACSL5,CEL,CRABP1,DHRS3,ELOVL5,FABP6,NR1I2,PEX5,PRDX5,SEMA3C,SERPINA6,SIAH1,SMARCC1,SULT2B1,TTR
HALLMARK_XENOBIOTIC_METABOLISM	3.5e-03	0.04400	1916	200	28	23467	ABCC2,ACOX1,ACOX2,BPHL,CASP6,CES1,COMT,CYB5A,CYP27A1,CYP4F2,DDAH2,DDC,ELOVL5,ENTPD5,F10,FABP1,FAH,GCLC,HACL1,JUP,LEAP2,PEMT,PGRMC1,PMM1,RBP4,SERPINA6,SLC6A6,TMEM176B
HALLMARK_ESTROGEN_RESPONSE_LATE	6.7e-03	0.06700	1916	200	27	23467	ACOX2,ANXA9,AREG,CHPT1,CXCL14,DHCR7,ELOVL5,FARP1,FGFR3,GAL,HR,KCNK5,MAPK13,MEST,OPN3,PCP4,PDZK1,PLAC1,PLXNB1,PRLR,PRSS23,SCARB1,SLC22A5,SLC26A2,SLC2A8,SULT2B1,TH

5.11.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	2421	200	123	23467	ADAR,APOL6,B2M,BANK1,BST2,CASP1,CASP4,CASP7,CCL5,CCL7,CD274,CD40,CD69,CD74,CD86,CDKN1A,CFB,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL10,CXCL11,CXCL9,DDX58,DDX60,DHX58,EIF4E3,FAS,FCGR1A,FGL2,FPR1,GBP4,GBP6,GCH1,GPR18,GZMA,HIF1A,HLA-DMA,HLA-DQA1,HLA-DRB1,ICAM1,IDO1,IFI27,IFI30,IFI35,IFI44L,IFIH1,IFIT2,IFIT3,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF4,IRF7,ISG20,ITGB7,JAK2,KLRK1,LAP3,LATS2,LCP2,LGALS3BP,LYSMD2,MARCH1,MT2A,MTHFD2,MX1,NLRC5,NMI,OAS2,OAS3,OASL,PARP12,PARP14,PDE4B,PFKP,PLA2G4A,PML,PSMB10,PSMB8,PSME1,PSME2,PTGS2,RIPK1,RSAD2,RTP4,SAMD9L,SAMHD1,SECTM1,SLAMF7,SLC25A28,SOCS1,SOCS3,SOD2,SP110,SPPL2A,ST8SIA4,STAT1,STAT2,STAT3,STAT4,TAP1,TAPBP,TNFAIP2,TNFSF10,TRAFD1,TRIM21,TRIM25,TRIM26,TXNIP,UBE2L6,UPP1,USP18,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	2421	200	108	23467	B2M,BCAT1,CCL13,CCL19,CCL22,CCL4,CCL5,CCL7,CCR1,CCR2,CCR5,CD2,CD247,CD3D,CD3E,CD3G,CD4,CD40,CD7,CD74,CD80,CD86,CD8A,CD8B,CD96,CFP,CRTAM,CSF1,CXCL13,CXCL9,DEGS1,ETS1,FAS,FASLG,FCGR2B,FGR,GBP2,GPR65,GZMA,HCLS1,HIF1A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICAM1,IFNG,IFNGR1,IGSF6,IL10,IL12RB1,IL15,IL16,IL18,IL18RAP,IL1B,IL27RA,IL2RA,IL2RB,IL4R,IL7,IRF4,IRF7,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LIF,LTB,LY86,LYN,MAP4K1,NCK1,NCR1,NLRP3,NOS2,PRF1,PRKCB,PRKCG,PSMB10,PTPRC,SOCS1,SPI1,SRGN,ST8SIA4,STAT1,STAT4,TAP1,TAP2,TAPBP,TGFB1,TIMP1,TLR1,TLR2,TLR3,TLR6,TNF,TPD52,TRAT1,WARS,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	2421	200	94	23467	ADM,AHR,ATP2A2,ATP2B1,BST2,C3AR1,C5AR1,CCL22,CCL5,CCL7,CCR7,CD14,CD40,CD48,CD55,CD69,CD82,CDKN1A,CLEC5A,CMKLR1,CSF1,CSF3R,CX3CL1,CXCL10,CXCL11,CXCL9,CXCR6,CYBB,EMP3,F3,FFAR2,FPR1,GCH1,GNA15,GP1BA,GPR183,HIF1A,HRH1,ICAM1,IL10,IL10RA,IL15,IL15RA,IL18,IL18R1,IL18RAP,IL1A,IL1B,IL2RB,IL4R,IRF1,IRF7,KCNA3,LAMP3,LCK,LCP2,LDLR,LIF,LTA,LYN,MARCO,MEFV,NLRP3,NMI,OSM,P2RX4,PDE4B,PIK3R5,PLAUR,PTAFR,PTGER2,RAF1,RASGRP1,RGS1,RNF144B,RTP4,SELL,SGMS2,SLAMF1,SLC1A2,SLC31A1,SLC31A2,SLC4A4,SLC7A2,SPHK1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFRSF9,TNFSF10,TNFSF9,TPBG
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	2421	97	60	23467	ADAR,B2M,BST2,CASP1,CD74,CMPK2,CSF1,CXCL10,CXCL11,DDX60,DHX58,GBP2,GBP4,GMPR,IFI27,IFI30,IFI35,IFI44L,IFIH1,IFIT2,IFIT3,IL15,IL4R,IL7,IRF1,IRF7,ISG20,LAMP3,LAP3,LGALS3BP,MOV10,MX1,NMI,NUB1,OASL,PARP12,PARP14,PARP9,PSMB8,PSME1,PSME2,RSAD2,RTP4,SAMD9,SAMD9L,SELL,SLC25A28,SP110,STAT2,TAP1,TRAFD1,TRIM21,TRIM25,TRIM26,TRIM5,TXNIP,UBA7,UBE2L6,USP18,WARS
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	2421	200	75	23467	ADAM9,APOBEC3F,APOBEC3G,C1QA,C1QC,C4BPB,CA2,CALM3,CASP1,CASP10,CASP4,CASP5,CASP7,CCL5,CD55,CFB,CP,CR1,CR2,CSRP1,CTSC,CTSD,CXCL1,DOCK10,DOCK4,DPP4,DUSP6,EHD1,F3,F5,FCER1G,FCN1,FYN,GNAI2,GNG2,GNGT2,GP1BA,GP9,GRB2,GZMA,GZMK,HSPA5,IRF1,IRF7,ITGAM,JAK2,KLK1,KYNU,LAP3,LCK,LCP2,LGMN,LYN,MAFF,ME1,MMP12,PIK3CG,PIK3R5,PLA2G4A,PLA2G7,PLAUR,PLEK,RAF1,RASGRP1,RNF4,S100A12,S100A13,S100A9,SERPINA1,SERPINB2,SH2B3,SPOCK2,TIMP1,WAS,XPNPEP1
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	2421	200	72	23467	ATP2B1,B4GALT1,BCL2A1,BCL6,BIRC3,BMP2,CCL4,CCL5,CD69,CD80,CDKN1A,CSF1,CXCL1,CXCL10,CXCL11,DDX58,DRAM1,DUSP4,EHD1,F3,FOSL2,GCH1,GPR183,ICAM1,IER5,IFIH1,IFIT2,IL15RA,IL18,IL1A,IL1B,IRF1,JAG1,KLF2,KLF4,KLF9,KYNU,LDLR,LIF,LITAF,MAFF,MCL1,NFKB2,NR4A2,PDE4B,PDLIM5,PFKFB3,PHLDA1,PLAUR,PLEK,PLK2,PTGS2,RELB,RNF19B,SAT1,SERPINB2,SGK1,SOCS3,SOD2,SPHK1,STAT5A,TAP1,TIPARP,TLR2,TNF,TNFAIP2,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TUBB2A,ZFP36
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	2421	200	64	23467	AHNAK,AHR,APLP1,BMP2,CA2,CD48,CD79B,CD86,CDCP1,CKAP4,CSF1,CST7,CTLA4,CXCL10,EOMES,FGL2,FLT3LG,GBP4,GLIPR2,GPR65,HK2,ICOS,IFNGR1,IKZF2,IL10,IL10RA,IL18R1,IL1R2,IL2RA,IL2RB,IL4R,IRF4,ITGA6,ITGAE,LIF,LRRC8C,LTB,MAFF,MUC1,MYO1C,MYO1E,NRP1,NT5E,P2RX4,PHLDA1,PRKCH,PTGER2,RABGAP1L,RHOH,SELL,SERPINB6,SMPDL3A,SOCS1,SOCS2,SPP1,ST3GAL4,SWAP70,TIAM1,TNFRSF18,TNFRSF21,TNFRSF8,TNFRSF9,TNFSF10,XBP1
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	2421	87	38	23467	BAK1,CCL7,CCR1,CD14,CSF1,CSF2RB,CSF3R,CXCL1,CXCL10,CXCL11,CXCL13,CXCL9,FAS,GRB2,HMOX1,IFNGR1,IL12RB1,IL15RA,IL18R1,IL1B,IL1R2,IL2RA,IL4R,IL7,IRF1,LTB,PIK3R5,PLA2G2A,REG1A,SOCS1,SOCS3,STAT1,STAT2,STAT3,TGFB1,TLR2,TNF,TNFRSF21
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	2421	200	55	23467	ADA,AK1,ALOX15B,BAK1,BMP2,CASP1,CD82,CDKN1A,CLCA2,CTSD,DDB2,DDIT4,DGKA,DRAM1,FAS,FDXR,GM2A,HEXIM1,HMOX1,HSPA4L,IER5,IFI30,IL1A,ITGB4,KLF4,LIF,LRMP,MDM2,MKNK2,PLK2,PLK3,POLH,PTPN14,RAD51C,RAP2B,RETSAT,RHBDF2,RNF19B,RPS27L,SAT1,SEC61A1,SLC7A11,SOCS1,SP1,SPHK1,TAP1,TCN2,TGFA,TGFB1,TM7SF3,TNFSF9,TP63,TRAFD1,TXNIP,UPP1
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	2421	161	46	23467	ANXA1,AVPR1A,BCL2L11,BIRC3,BMP2,BNIP3L,CASP1,CASP4,CASP7,CD14,CD2,CD69,CDKN1A,CYLD,DAP,DNAJC3,DPYD,ENO2,FAS,FASLG,FDXR,GCH1,GNA15,GSN,GSR,HMOX1,IFNGR1,IL18,IL1A,IL1B,IRF1,ISG20,LMNA,MCL1,NEDD9,PLCB2,PRF1,RETSAT,SAT1,SLC20A1,SOD2,TAP1,TIMP1,TNF,TNFSF10,TXNIP
HALLMARK_HYPOXIA	0.0e+00	0.0e+00	2421	200	49	23467	ADM,AMPD3,ANGPTL4,B4GALNT2,BNIP3L,CA12,CDKN1A,CHST3,CITED2,CP,CXCR4,DDIT4,ENO1,ENO2,ETS1,EXT1,F3,FOSL2,GAPDH,GBE1,GYS1,HDLBP,HK1,HK2,HMOX1,HS3ST1,HSPA5,ISG20,KDELR3,LDHA,LXN,MAFF,MT1E,MT2A,NAGK,NCAN,PFKFB3,PFKP,PLAC8,PLAUR,SLC2A5,TGFB3,TIPARP,TMEM45A,TPBG,TPD52,TPI1,XPNPEP1,ZFP36
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	2421	200	49	23467	ADAM8,ANGPTL4,ANO1,ANXA10,BIRC3,BMP2,BTBD3,C3AR1,CA2,CD37,CFB,CLEC4A,CMKLR1,CXCL10,CXCR4,DOCK2,DUSP6,ETS1,ETV1,ETV5,FCER1G,IKZF1,IL10RA,IL1B,ITGB2,KLF4,LAPTM5,LAT2,LCP1,LIF,MAP4K1,NRP1,PDCD1LG2,PECAM1,PIGR,PLAUR,PRDM1,PRRX1,PSMB8,PTGS2,RABGAP1L,SERPINA3,SPON1,SPP1,TLR8,TOR1AIP2,TRIB2,TSPAN1,TSPAN13
HALLMARK_MTORC1_SIGNALING	1.0e-07	5.0e-07	2421	200	46	23467	ATP2A2,BCAT1,CALR,CDKN1A,CFP,CORO1A,CTSC,CXCR4,DAPP1,DDIT4,DHFR,EDEM1,EGLN3,ELOVL6,ENO1,FAM129A,FDXR,FGL2,FKBP2,GAPDH,GBE1,GOT1,GSR,HK2,HSP90B1,HSPA5,IFI30,ITGB2,LDHA,LDLR,LGMN,MCM4,ME1,MTHFD2,NMT1,PIK3R3,RPN1,RRM2,SHMT2,SLA,SLC7A11,SSR1,TPI1,TUBG1,WARS,XBP1
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.0e-06	3.2e-06	2421	200	44	23467	ABCA3,ABLIM1,AQP3,B4GALT1,BAG1,BLVRB,CA12,CANT1,CBFA2T3,CYP26B1,ENDOD1,FHL2,FKBP5,FLNB,JAK2,KDM4B,KLF4,KLK10,KRT13,MICB,MLPH,MREG,MUC1,MYOF,PODXL,RASGRP1,RET,RPS6KA2,SEC14L2,SH3BP5,SLC1A1,SLC37A1,SLC7A2,SNX24,SYNGR1,SYT12,TFF1,TIAM1,TIPARP,TMPRSS3,TPBG,UGCG,WWC1,XBP1
HALLMARK_ESTROGEN_RESPONSE_LATE	1.0e-06	3.2e-06	2421	200	44	23467	ABCA3,AGR2,ALDH3A2,ASS1,BAG1,BLVRB,CA12,CA2,CYP26B1,DNAJC1,EMP2,FABP5,FKBP5,FLNB,HOMER2,HSPA4L,ISG20,JAK2,KLF4,KLK10,KLK11,KRT13,LAMC2,MICB,MYOF,PRKAR2B,RET,RPS6KA2,S100A9,SERPINA1,SERPINA3,SGK1,ST6GALNAC2,TFF1,TIAM1,TMPRSS3,TPBG,TRIM29,TSPAN13,TSTA3,UGDH,UNC13B,XBP1,ZFP36
HALLMARK_GLYCOLYSIS	3.2e-05	9.9e-05	2421	200	40	23467	AKR1A1,ANGPTL4,B3GAT1,B4GALT1,CHST6,CITED2,COPB2,CXCR4,DDIT4,EGLN3,ENO1,ENO2,EXT1,FUT8,GMPPB,GNE,GOT1,GPR87,GUSB,GYS1,HDLBP,HK2,HSPA5,ISG20,KDELR3,LDHA,MDH1,ME1,MIOX,NT5E,PFKP,PGAM1,PKP2,QSOX1,SLC16A3,SRD5A3,TGFA,TPBG,TPI1,TSTA3
HALLMARK_APICAL_JUNCTION	1.5e-04	4.5e-04	2421	200	38	23467	ADAM15,ADAM9,ALOX15B,AMH,ARHGEF6,B4GALT1,CADM3,CD209,CD274,CD86,CDH15,CLDN18,CRAT,CX3CL1,EVL,FLNC,FSCN1,GNAI1,GNAI2,ICAM1,ICAM5,ITGA3,ITGB4,LAMC2,LIMA1,MAPK11,MSN,NF2,NRAP,PECAM1,PIK3R3,PTPRC,RAC2,RHOF,TSPAN4,TUBG1,VCL,YWHAH
HALLMARK_COAGULATION	3.6e-04	9.9e-04	2421	138	28	23467	ADAM9,ANXA1,ARF4,C1QA,CAPN2,CFB,CFD,CSRP1,CTSE,DPP4,DUSP6,F3,FYN,GDA,GP1BA,GP9,GSN,LGMN,MAFF,MMP1,P2RY1,PECAM1,PLEK,RAPGEF3,S100A13,SERPINA1,SERPINB2,TIMP1
HALLMARK_XENOBIOTIC_METABOLISM	6.5e-04	1.7e-03	2421	200	36	23467	ABCD2,ACP2,ACSM1,ALAS1,APOE,ATP2A2,BCAR1,BCAT1,BLVRB,CA2,CFB,CYP2C18,FAS,GAD1,GCH1,GCKR,GSR,HMOX1,HSD17B2,ITIH4,KYNU,MT2A,NMT1,PDLIM5,PPARD,PSMB10,REG1A,RETSAT,SHMT2,SLC46A3,SLC6A12,SSR3,TMBIM6,UGDH,UPP1,VNN1
HALLMARK_FATTY_ACID_METABOLISM	7.3e-04	1.8e-03	2421	158	30	23467	ACADL,ACADS,ALDH3A2,BLVRA,CA2,CBR3,CPOX,CPT2,CRAT,DLST,ECHS1,EHHADH,ENO2,ERP29,FH,GLUL,HADHB,IL4I1,LDHA,MDH1,ME1,PSME1,RDH16,RETSAT,SDHA,TP53INP2,UBE2L6,UGDH,VNN1,YWHAH
HALLMARK_ANDROGEN_RESPONSE	1.2e-03	2.8e-03	2421	100	21	23467	B2M,B4GALT1,ELL2,FKBP5,GSR,HOMER2,IQGAP2,KLK3,MAK,NKX3-1,PDLIM5,PGM3,SAT1,SEC24D,SGK1,SPDEF,STEAP4,TNFAIP8,TPD52,UAP1,UBE2J1
HALLMARK_HEME_METABOLISM	4.5e-03	1.0e-02	2421	200	33	23467	ADD2,ADIPOR1,AGPAT4,ALDH1L1,ANK1,AQP3,BLVRA,BLVRB,BNIP3L,CA2,CPOX,CTSE,ELL2,ENDOD1,EPOR,KAT2B,LRP10,MARCH8,MOCOS,OPTN,PSMD9,RNF19A,SDCBP,SEC14L1,SIDT2,SLC25A37,SLC7A11,SPTB,TMCC2,TNRC6B,TRIM10,UBAC1,UCP2
HALLMARK_MITOTIC_SPINDLE	7.5e-03	1.6e-02	2421	199	32	23467	ALS2,ARF6,ARHGAP10,ARHGEF2,ARHGEF3,BCAR1,BCL2L11,BCR,CCDC88A,CDC42EP1,CDC42EP2,CDC42EP4,DOCK2,DOCK4,EZR,FGD4,FLNB,FSCN1,GSN,MYO1E,NCK1,NEDD9,NOTCH2,PALLD,PDLIM5,PREX1,PXN,RHOF,TIAM1,TUBGCP2,VCL,WASF1
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.1e-02	2.2e-02	2421	105	19	23467	CALR,CDKN1A,CLTC,CXCR4,DAPP1,FASLG,GNA14,GRB2,HSP90B1,LCK,MKNK2,NCK1,PIK3R3,PRKCB,RAF1,RIPK1,SLA,STAT2,TIAM1
HALLMARK_UV_RESPONSE_UP	1.1e-02	2.2e-02	2421	158	26	23467	ALAS1,AQP3,BAK1,BCL2L11,BMP2,C4BPB,CA2,CCK,ENO2,FEN1,GCH1,HMOX1,ICAM1,IRF1,LYN,MGAT1,RAB27A,RASGRP1,RET,RPN1,SHOX2,SLC25A4,SLC6A12,SOD2,TAP1,TMBIM6
HALLMARK_APICAL_SURFACE	1.3e-02	2.4e-02	2421	44	10	23467	AFAP1L2,B4GALT1,CD160,CX3CL1,EFNA5,IL2RB,LYN,MAL,MDGA1,PLAUR
HALLMARK_CHOLESTEROL_HOMEOSTASIS	1.8e-02	3.3e-02	2421	74	14	23467	ANTXR2,ATF5,AVPR1A,ETHE1,FABP5,FAM129A,FBXO6,FDPS,GNAI1,GUSB,JAG1,LDLR,LGMN,PLAUR
HALLMARK_KRAS_SIGNALING_DN	2.3e-02	4.2e-02	2421	200	30	23467	CAPN9,CCR8,CD80,GP1BA,GPR3,GRID2,IFI44L,IFNG,KCNN1,KRT13,MAST3,MEFV,MTHFR,MX1,NR4A2,P2RX6,PDCD1,RSAD2,SERPINB2,SGK1,SHOX2,SIDT1,SLC12A3,SLC16A7,SLC6A14,SNCB,SPRR3,TCL1A,TFF2,TGM1

5.12 LUSC

5.12.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	856	200	83	23467	ATAD2,AURKA,AURKB,BRCA1,BRCA2,BUB1B,CCNB2,CDC20,CDC25A,CDCA3,CDCA8,CDK1,CDKN3,CENPE,CHEK1,CKS1B,CKS2,DEPDC1,DIAPH3,DLGAP5,DONSON,DSCC1,E2F8,ESPL1,EXOSC8,GINS1,GINS3,GINS4,H2AFZ,HELLS,HMGA1,HMGB2,HMMR,IPO7,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM6,MCM7,MELK,MKI67,MTHFD2,MYBL2,NOLC1,NOP56,NUP107,PAICS,PCNA,PLK1,PLK4,POLD1,PTTG1,RACGAP1,RAD51AP1,RANBP1,RFC3,RNASEH2A,RPA1,SHMT1,SLBP,SMC3,SNRPB,SPAG5,SPC24,SPC25,SUV39H1,TIMELESS,TK1,TOP2A,TRIP13,UBE2S,UBE2T,UNG,WEE1,XPO1
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	856	200	76	23467	AURKA,AURKB,BRCA2,BUB1,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC45,CDC6,CDK1,CDKN3,CENPA,CENPE,CHAF1A,CHEK1,CKS1B,CKS2,DKC1,E2F1,ESPL1,EXO1,FANCC,G3BP1,GINS2,H2AFZ,HMGA1,HMMR,HOXC10,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM6,MKI67,MNAT1,MYBL2,NDC80,NEK2,NOLC1,NUSAP1,ODC1,PBK,PLK1,PLK4,PRC1,PRMT5,PTTG1,RACGAP1,RAD54L,SFPQ,SLC7A5,SMARCC1,SMC2,SNRPD1,STIL,SUV39H1,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S,WRN,XPO1
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	856	200	51	23467	ABCE1,C1QBP,CCNA2,CCT2,CCT4,CDC20,CDC45,CDK2,DDX18,DDX21,EIF4A1,EXOSC7,FBL,G3BP1,GNL3,H2AFZ,HNRNPR,HPRT1,HSPD1,IARS,IMPDH2,KPNA2,LSM7,MAD2L1,MCM2,MCM4,MCM6,MCM7,NHP2,NOLC1,NOP16,NOP56,NPM1,ODC1,PCNA,PGK1,RANBP1,RNPS1,RPL14,RRM1,RRP9,RSL1D1,SET,SMARCC1,SNRPA,SNRPD1,TYMS,UBA2,XPO1,XPOT,YWHAE
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	856	58	26	23467	DDX18,GNL3,HSPD1,IMP4,IPO4,LAS1L,MCM4,MRTO4,MYBBP1A,NDUFAF4,NOLC1,NOP16,NOP56,NPM1,PLK1,PLK4,PRMT3,RCL1,RRP9,SLC29A2,SUPV3L1,TCOF1,TFB2M,TMEM97,UNG,WDR43
HALLMARK_MTORC1_SIGNALING	0.0e+00	0.0e+00	856	200	42	23467	ACLY,ASNS,AURKA,BUB1,CCNF,CCT6A,CDC25A,DHCR7,DHFR,ELOVL6,FADS1,G6PD,GBE1,GCLC,GOT1,GSR,HMBS,HMGCR,HPRT1,HSPA4,HSPA9,HSPD1,MCM2,MCM4,ME1,MTHFD2,NUFIP1,PGK1,PHGDH,PLK1,PNO1,PSAT1,RPA1,RRP9,SCD,SLC37A4,SLC7A11,SLC7A5,TMEM97,TRIB3,TXNRD1,UNG
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	856	199	33	23467	ANLN,AURKA,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPJ,CKAP5,DLGAP5,ESPL1,GEMIN4,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,LMNB1,LRPPRC,NDC80,NEK2,NUSAP1,PLK1,PRC1,RACGAP1,SASS6,SMC3,TOP2A,TPX2,TTK,WASF1,YWHAE
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	0.0e+00	0.0e+00	856	113	22	23467	ASNS,CEBPG,CKS1B,DDX10,DKC1,EIF4A1,EXOSC2,EXOSC9,GEMIN4,HSPA9,IARS,KHSRP,MTHFD2,NHP2,NOLC1,NOP56,NPM1,PSAT1,RRP9,SLC7A5,STC2,XPOT
HALLMARK_SPERMATOGENESIS	0.0e+00	1.0e-07	856	135	21	23467	AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,CSNK2A2,DDX25,DMRT1,GSTM3,KIF2C,NCAPH,NEFH,NEK2,NOS1,PHF7,STRBP,TALDO1,TOPBP1,TTK,YBX2
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	8.9e-06	5.0e-05	856	49	10	23467	ABCC1,G6PD,GCLC,GCLM,GSR,NQO1,OXSR1,PFKP,SRXN1,TXNRD1
HALLMARK_GLYCOLYSIS	4.1e-04	2.0e-03	856	200	18	23467	ARTN,AURKA,CDK1,CENPA,DEPDC1,G6PD,GCLC,GNPDA1,GOT1,HMMR,IRS2,KIF20A,ME1,PFKP,PGK1,SLC37A4,STC2,TALDO1
HALLMARK_ESTROGEN_RESPONSE_LATE	1.1e-03	5.0e-03	856	200	17	23467	CDC20,CDC6,DHCR7,ETFB,FDFT1,GAL,GINS2,HPRT1,KIF20A,MEST,PLK4,RABEP1,RNASEH2A,SLC7A5,STIL,TOP2A,UGDH
HALLMARK_CHOLESTEROL_HOMEOSTASIS	1.5e-03	6.0e-03	856	74	9	23467	ACAT2,CBS,CTNNB1,DHCR7,FDFT1,HMGCR,SCD,TMEM97,TRIB3
HALLMARK_DNA_REPAIR	3.4e-03	1.3e-02	856	150	13	23467	EIF1B,FEN1,HPRT1,IMPDH2,PCNA,POLD1,PRIM1,RAD51,RFC3,RFC5,SMAD5,TAF9,TYMS
HALLMARK_ADIPOGENESIS	1.5e-02	5.1e-02	856	200	14	23467	ACLY,AIFM1,COQ3,DHCR7,ELOVL6,ETFB,GBE1,GPHN,GRPEL1,ME1,PEMT,TALDO1,TKT,UQCRC1
HALLMARK_XENOBIOTIC_METABOLISM	1.5e-02	5.1e-02	856	200	14	23467	AHCY,GART,GCLC,GSR,GSTM4,HACL1,HES6,HPRT1,LONP1,NQO1,PEMT,PGD,TMEM97,UGDH
HALLMARK_ANDROGEN_RESPONSE	3.0e-02	8.9e-02	856	100	8	23467	CENPN,FADS1,GSR,H1F0,HMGCR,KLK2,SCD,SMS
HALLMARK_UV_RESPONSE_UP	3.0e-02	8.9e-02	856	158	11	23467	ASNS,CDK2,CEBPG,CHRNA5,DDX21,EPCAM,FEN1,GAL,GRPEL1,PPAT,SIGMAR1
HALLMARK_APOPTOSIS	3.4e-02	9.5e-02	856	161	11	23467	BRCA1,CDK2,CTNNB1,DFFA,GSR,GUCY2D,H1F0,HMGB2,NEFH,TOP2A,WEE1

5.12.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	5017	200	148	23467	ADAR,APOL6,ARID5B,AUTS2,B2M,BANK1,BATF2,BPGM,BST2,BTG1,C1R,C1S,CASP1,CASP4,CASP7,CASP8,CCL2,CCL5,CD38,CD40,CD69,CD74,CD86,CDKN1A,CFB,CFH,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL11,DDX58,DDX60,DHX58,EIF4E3,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GBP4,GCH1,GPR18,GZMA,HERC6,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,HLA-G,ICAM1,IDO1,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT1,IFIT2,IFIT3,IFITM2,IFITM3,IFNAR2,IL10RA,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF2,IRF4,IRF5,IRF7,IRF8,IRF9,ISG20,ITGB7,JAK2,KLRK1,LAP3,LATS2,LCP2,LGALS3BP,LY6E,MVP,MX1,MYD88,NFKB1,NFKBIA,NLRC5,NMI,NOD1,OAS2,OAS3,OASL,OGFR,P2RY14,PARP12,PARP14,PDE4B,PLSCR1,PML,PSMB10,PSMB8,PSMB9,PSME1,PSME2,PTPN1,PTPN6,RIPK1,RSAD2,RTP4,SAMD9L,SAMHD1,SECTM1,SELP,SERPING1,SLAMF7,SOD2,SP110,SRI,SSPN,ST3GAL5,ST8SIA4,STAT1,STAT2,STAT3,STAT4,TAP1,TAPBP,TNFAIP3,TNFSF10,TRAFD1,TRIM14,TRIM21,TRIM26,TXNIP,UBE2L6,VAMP5,VAMP8,VCAM1,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	5017	200	126	23467	AKT1,B2M,BCL10,BCL3,C2,CAPG,CCL11,CCL19,CCL2,CCL22,CCL5,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD47,CD7,CD74,CD79A,CD80,CD86,CD8A,CD96,CFP,CRTAM,CSF1,CSK,CTSS,CXCL13,CXCR3,DYRK3,ELANE,ETS1,FAS,FASLG,FCGR2B,FGR,GBP2,GPR65,GZMA,HCLS1,HLA-A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,HLA-G,ICAM1,ICOSLG,IFNAR2,IFNGR1,IFNGR2,IGSF6,IKBKB,IL10,IL12B,IL12RB1,IL13,IL16,IL18,IL18RAP,IL1B,IL2,IL2RA,IL2RB,IL2RG,IL4R,IL7,IRF4,IRF7,IRF8,ITGAL,ITGB2,ITK,JAK2,LCK,LCP2,LTB,LY75,LY86,LYN,MAP4K1,NCF4,NCK1,NCR1,NLRP3,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,SIT1,SOCS5,SPI1,SRGN,ST8SIA4,STAB1,STAT1,STAT4,TAP1,TAP2,TAPBP,TGFB1,THY1,TIMP1,TLR1,TLR2,TLR3,TLR6,TNF,TRAT1,WARS,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	5017	200	122	23467	AHR,APLNR,AQP9,ATP2C1,AXL,BDKRB1,BST2,BTG2,C3AR1,C5AR1,CCL17,CCL2,CCL20,CCL22,CCL24,CCL5,CCR7,CCRL2,CD14,CD40,CD48,CD69,CD82,CDKN1A,CMKLR1,CSF1,CSF3,CSF3R,CX3CL1,CXCL11,CXCL6,CXCR6,CYBB,EBI3,EMP3,FFAR2,FPR1,GCH1,GNA15,GP1BA,GPR132,GPR183,HAS2,HPN,ICAM1,ICAM4,ICOSLG,IFNAR1,IFNGR2,IL10,IL10RA,IL12B,IL15RA,IL18,IL18R1,IL18RAP,IL1A,IL1B,IL1R1,IL2RB,IL4R,IL7R,IRAK2,IRF1,IRF7,KCNA3,LAMP3,LCK,LCP2,LTA,LY6E,LYN,MEFV,MEP1A,NDP,NFKB1,NFKBIA,NLRP3,NMI,NMUR1,NOD2,OLR1,P2RX7,P2RY2,PCDH7,PDE4B,PIK3R5,PSEN1,PTAFR,PTGER2,PTGER4,PTGIR,PTPRE,RASGRP1,RELA,RGS16,RHOG,RNF144B,ROS1,RTP4,SCARF1,SCN1B,SELE,SELL,SEMA4D,SGMS2,SLAMF1,SLC1A2,SLC31A2,SLC4A4,SRI,STAB1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFRSF1B,TNFRSF9,TNFSF10,TNFSF15,VIP
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	5017	97	76	23467	ADAR,B2M,BATF2,BST2,C1S,CASP1,CASP8,CCRL2,CD47,CD74,CMPK2,CNP,CSF1,CXCL11,DDX60,DHX58,ELF1,EPSTI1,GBP2,GBP4,HERC6,HLA-C,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFITM2,IFITM3,IL4R,IL7,IRF1,IRF2,IRF7,IRF9,ISG20,LAMP3,LAP3,LGALS3BP,LPAR6,LY6E,MX1,NCOA7,NMI,NUB1,OASL,OGFR,PARP12,PARP14,PARP9,PLSCR1,PSMB8,PSMB9,PSME1,PSME2,RSAD2,RTP4,SAMD9,SAMD9L,SELL,SP110,STAT2,TAP1,TMEM140,TRAFD1,TRIM14,TRIM21,TRIM26,TRIM5,TXNIP,UBA7,UBE2L6,WARS
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	5017	200	105	23467	APOBEC3F,APOBEC3G,C1QA,C1QC,C1R,C1S,C2,C3,CALM1,CALM3,CASP1,CASP10,CASP4,CASP7,CASP9,CBLB,CCL5,CD36,CD40LG,CD59,CEBPB,CFB,CFH,CP,CPM,CR1,CR2,CSRP1,CTSC,CTSD,CTSH,CTSO,CTSS,CXCL1,DOCK10,DOCK4,DOCK9,DUSP5,EHD1,F10,F5,FCER1G,FCN1,FDX1,GATA3,GCA,GNAI2,GNB2,GNG2,GNGT2,GP1BA,GRB2,GZMA,GZMK,HNF4A,IRF1,IRF2,IRF7,ITGAM,ITIH1,JAK2,KLKB1,KYNU,LAP3,LCK,LCP2,LGMN,LIPA,LTA4H,LTF,LYN,MMP13,NOTCH4,OLR1,PDP1,PIK3CA,PIK3CG,PIK3R5,PLA2G7,PLAT,PLEK,PLSCR1,PRCP,PRSS36,PSEN1,PSMB9,RABIF,RASGRP1,RHOG,S100A12,S100A9,SERPINA1,SERPINB2,SERPING1,SH2B3,SPOCK2,SRC,STX4,TIMP1,TIMP2,TNFAIP3,USP15,USP8,VCPIP1,WAS
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	5017	200	99	23467	B4GALT5,BCL2A1,BCL3,BCL6,BHLHE40,BIRC2,BIRC3,BMP2,BTG1,BTG2,CCL2,CCL20,CCL5,CCND1,CCNL1,CCRL2,CD69,CD80,CD83,CDKN1A,CEBPB,CFLAR,CSF1,CXCL1,CXCL11,CXCL2,CXCL6,DDX58,DRAM1,DUSP5,EHD1,G0S2,GADD45A,GCH1,GPR183,HES1,ICAM1,ICOSLG,IER5,IFIH1,IFIT2,IFNGR2,IL12B,IL15RA,IL18,IL1A,IL1B,IL23A,IL7R,IRF1,JUNB,KLF10,KLF2,KLF4,KYNU,LITAF,MAP2K3,MAP3K8,MCL1,NFKB1,NFKB2,NFKBIA,NFKBIE,NINJ1,NR4A2,NR4A3,OLR1,PANX1,PDE4B,PHLDA1,PLEK,PMEPA1,PNRC1,PTGER4,PTPRE,RELA,RELB,RNF19B,SAT1,SDC4,SERPINB2,SERPINB8,SLC2A6,SMAD3,SNN,SOD2,STAT5A,TANK,TAP1,TLR2,TNF,TNFAIP3,TNFAIP8,TNFRSF9,TNIP1,TRAF1,TRIB1,TRIP10,ZC3H12A
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	5017	200	97	23467	ABCB1,ADAM19,AGER,AHR,AKAP2,AMACR,BATF,BCL2,BCL2L1,BHLHE40,BMP2,BMPR2,CAPG,CAPN3,CCR4,CD48,CD79B,CD81,CD83,CD86,CDC42SE2,CDKN1C,CISH,CSF1,CST7,CTLA4,CTSZ,DHRS3,ECM1,EMP1,FAM126B,FGL2,FLT3LG,GALM,GATA1,GBP4,GLIPR2,GPR65,HOPX,ICOS,IFITM3,IFNGR1,IKZF2,IKZF4,IL10,IL10RA,IL13,IL18R1,IL1R2,IL1RL1,IL2RA,IL2RB,IL4R,IRF4,IRF8,ITIH5,LRRC8C,LTB,MAP3K8,MAPKAPK2,MUC1,MYO1E,NFKBIZ,PHLDA1,PLEC,PLSCR1,PRKCH,PRNP,PTGER2,PTH1R,RABGAP1L,RGS16,RHOH,SELL,SELP,SERPINB6,SH3BGRL2,SHE,SLC39A8,SMPDL3A,SNX14,SPRED2,SWAP70,SYNGR2,SYT11,TGM2,TLR7,TNFRSF18,TNFRSF1B,TNFRSF21,TNFRSF4,TNFRSF8,TNFRSF9,TNFSF10,TNFSF11,TRAF1,XBP1
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	5017	87	50	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CD36,CD38,CSF1,CSF2RB,CSF3R,CXCL1,CXCL11,CXCL13,EBI3,FAS,GRB2,IFNAR1,IFNGR1,IFNGR2,IL10RB,IL12RB1,IL15RA,IL18R1,IL1B,IL1R1,IL1R2,IL2RA,IL2RG,IL4R,IL7,IRF1,IRF9,LEPR,LTB,MAP3K8,MYD88,PIK3R5,PLA2G2A,PTPN1,STAM2,STAT1,STAT2,STAT3,TGFB1,TLR2,TNF,TNFRSF1A,TNFRSF1B,TNFRSF21,TYK2
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	5017	200	85	23467	ABCB1,ADAM8,AKT2,ALDH1A3,ANO1,APOD,BIRC3,BMP2,BPGM,C3AR1,CAB39L,CCL20,CD37,CFB,CFH,CLEC4A,CMKLR1,CPE,CROT,CTSS,CXCR4,DOCK2,EMP1,ENG,ETS1,F13A1,FBXO4,FCER1G,FLT4,FUCA1,G0S2,GLRX,GNG11,GYPC,HKDC1,IKZF1,IL10RA,IL1B,IL2RG,IL33,IL7R,IRF8,ITGB2,ITGBL1,KCNN4,KLF4,LAPTM5,LAT2,LCP1,LY96,MAFB,MALL,MAP4K1,MMP10,MPZL2,MTMR10,PECAM1,PEG3,PIGR,PLAT,PLVAP,PRDM1,PRRX1,PSMB8,RABGAP1L,RETN,RGS16,SCN1B,SERPINA3,SLPI,SPON1,ST6GAL1,TFPI,TLR8,TMEM176A,TMEM176B,TNFAIP3,TNFRSF1B,TRAF1,TRIB1,TRIB2,TSPAN1,TSPAN13,VWA5A,ZNF639
HALLMARK_COAGULATION	0.0e+00	0.0e+00	5017	138	61	23467	A2M,ACOX2,APOC2,C1QA,C1R,C1S,C2,C3,CAPN2,CAPN5,CASP9,CFB,CFD,CFH,CFI,COMP,CSRP1,CTSE,CTSH,CTSK,CTSO,F10,F11,FBN1,FGG,GNB2,GNG12,GP1BA,HNF4A,HPN,ISCU,ITIH1,KLKB1,LGMN,LTA4H,MEP1A,MMP10,MMP2,MMP7,MSRB2,OLR1,P2RY1,PECAM1,PLAT,PLEK,PROS1,RABIF,RAC1,RAPGEF3,RGN,SERPINA1,SERPINB2,SERPING1,SH2B2,SIRT2,SPARC,TF,THBD,THBS1,TIMP1,VWF
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	5017	161	68	23467	ADD1,BCL10,BCL2L1,BGN,BIRC3,BMP2,BTG2,CASP1,CASP2,CASP4,CASP7,CASP8,CASP9,CCND1,CD14,CD2,CD38,CD69,CDKN1A,CFLAR,CYLD,DAP,DCN,DNAJC3,DPYD,EMP1,ERBB2,FAS,FASLG,GADD45A,GCH1,GNA15,GPX3,IFITM3,IFNGR1,IL18,IL1A,IL1B,IRF1,ISG20,LUM,MCL1,MGMT,MMP2,PDGFRB,PEA15,PLAT,PLCB2,PPP2R5B,PRF1,PSEN1,PSEN2,PTK2,RARA,RELA,RETSAT,RNASEL,SAT1,SMAD7,SOD2,TAP1,TIMP1,TIMP2,TNF,TNFSF10,TSPO,TXNIP,XIAP
HALLMARK_P53_PATHWAY	1.0e-07	2.0e-07	5017	200	76	23467	ABAT,ABCC5,AK1,ALOX15B,APAF1,BAK1,BLCAP,BMP2,BTG1,BTG2,CASP1,CD81,CD82,CDKN1A,CEBPA,CTSD,CYFIP2,DEF6,DGKA,DRAM1,EPHA2,ERCC5,FAS,FUCA1,GADD45A,GM2A,HEXIM1,IER5,IFI30,IL1A,ISCU,KIF13B,KLF4,LRMP,MDM2,MXD4,NINJ1,NUPR1,PHLDA3,PLK3,PLXNB2,POLH,PRKAB1,PRMT2,PTPRE,RAD9A,RALGDS,RAP2B,RCHY1,RETSAT,RGS16,RHBDF2,RNF19B,RPS27L,RRAD,S100A4,SAT1,SEC61A1,SERTAD3,SESN1,SLC35D1,ST14,STEAP3,TAP1,TGFA,TGFB1,TOB1,TP63,TRAFD1,TXNIP,VAMP8,VDR,VWA5A,WWP1,ZFP36L1,ZMAT3
HALLMARK_XENOBIOTIC_METABOLISM	6.0e-07	2.5e-06	5017	200	73	23467	ABCD2,ACOX1,ACOX2,ACOX3,ACP2,ACSM1,ADH1C,ALDH2,ALDH9A1,AP4B1,AQP9,ARPP19,ASL,ATOH8,CCL25,CD36,CDO1,CFB,CNDP2,CROT,CYB5A,CYFIP2,CYP17A1,CYP27A1,CYP2C18,CYP2E1,DHRS1,DHRS7,EPHA2,ESR1,ETFDH,F10,F11,FAS,FBP1,FETUB,FMO1,FMO3,GCH1,GNMT,HNF4A,HSD17B2,IGF1,IGFBP4,IL1R1,IRF8,ITIH1,KYNU,MAN1A1,MAOA,NDRG2,NINJ1,PAPSS2,PINK1,PPARD,PROS1,PSMB10,PTGDS,PTGES,RETSAT,SERTAD1,SLC12A4,SLC35D1,SLC46A3,SLC6A12,SPINT2,SSR3,TDO2,TMBIM6,TMEM176B,TNFRSF1A,VNN1,XDH
HALLMARK_APICAL_JUNCTION	1.2e-05	4.3e-05	5017	200	69	23467	ACTB,ADAM15,AKT2,ALOX15B,ARHGEF6,ARPC2,CADM3,CAP1,CD209,CD34,CD86,CDH15,CDH6,CLDN18,CLDN5,CLDN9,CNN2,CRAT,CTNND1,CX3CL1,DLG1,EVL,FBN1,GNAI2,ICAM1,ICAM2,ICAM4,ITGA10,ITGA9,LDLRAP1,MADCAM1,MAPK11,MAPK14,MMP2,MPZL1,MPZL2,MSN,MYL12B,NEGR1,NEXN,NFASC,PARVA,PCDH1,PECAM1,PIK3CB,PIK3R3,PLCG1,PTK2,PTPRC,RAC2,RRAS,RSU1,SIRPA,SKAP2,SRC,STX4,SYK,TAOK2,THBS3,THY1,TRAF1,TSPAN4,VASP,VCAM1,VCAN,VWF,WASL,YWHAH,ZYX
HALLMARK_MYOGENESIS	2.4e-05	8.0e-05	5017	200	68	23467	AGRN,AK1,AKT2,APLNR,APOD,BAG1,BDKRB2,BHLHE40,CASQ1,CASQ2,CD36,CDKN1A,CFD,CKMT2,CNN3,COL6A3,COX7A1,CRAT,DAPK2,DES,DMD,EPHB3,FXYD1,GJA5,GPX3,HRC,HSPB2,HSPB8,IGF1,IGFBP7,ITGA7,KIFC3,LAMA2,LDB3,LSP1,MB,MEF2A,MEF2C,MEF2D,MRAS,MYBPC3,MYF6,MYL3,MYL4,OCEL1,PKIA,PLXNB2,PRNP,PSEN2,PTGIS,PTP4A3,PYGM,SGCA,SH3BGR,SIRT2,SOD3,SORBS1,SPARC,SPDEF,SSPN,ST5,SYNGR2,TAGLN,TGFB1,TNNI2,TNNT3,TPM3,TSC2
HALLMARK_TGF_BETA_SIGNALING	3.9e-05	1.2e-04	5017	54	25	23467	ARID4B,BMP2,BMPR2,CDK9,CDKN1C,ENG,FKBP1A,ID1,ID3,IFNGR2,JUNB,KLF10,LTBP2,PMEPA1,PPP1CA,RAB31,SKI,SMAD3,SMAD6,SMAD7,SPTBN1,TGFB1,THBS1,UBE2D3,XIAP
HALLMARK_PI3K_AKT_MTOR_SIGNALING	6.8e-05	2.0e-04	5017	105	40	23467	ACTR2,AKT1,AKT1S1,AP2M1,ARF1,ARHGDIA,CAB39,CAB39L,CDKN1A,CFL1,CXCR4,DAPP1,FASLG,GNA14,GRB2,IL2RG,IRAK4,LCK,MAP2K3,MAPK10,MKNK1,MYD88,NCK1,NFKBIB,NOD1,PIK3R3,PLCG1,PPP1CA,PRKCB,RAC1,RIPK1,RPS6KA1,SLA,STAT2,THEM4,TNFRSF1A,TSC2,UBE2D3,VAV3,YWHAB
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	8.7e-05	2.4e-04	5017	200	66	23467	ABI3BP,ACTA2,BASP1,BGN,CADM1,CALD1,CAPG,CD59,CDH6,COL12A1,COL1A2,COL6A3,COMP,CXCL1,CXCL12,CXCL6,DAB2,DCN,ECM1,ECM2,EFEMP2,ELN,EMP3,FAS,FBLN2,FBLN5,FBN1,FMOD,FUCA1,GADD45A,GLIPR1,IGFBP4,IL32,LAMA2,LOXL1,LUM,MGP,MMP2,NNMT,NOTCH2,NTM,PCOLCE,PDGFRB,PMEPA1,PMP22,PRRX1,QSOX1,SAT1,SDC4,SFRP4,SLIT3,SNTB1,SPARC,TAGLN,TGFB1,TGM2,THBS1,THY1,TIMP1,TNFAIP3,TPM4,VCAM1,VCAN,VEGFC,VIM,WIPF1
HALLMARK_HEME_METABOLISM	1.6e-04	4.3e-04	5017	200	65	23467	ACP5,ADD1,ADIPOR1,AGPAT4,ALAD,ANK1,AQP3,ARHGEF12,ARL2BP,ATG4A,ATP6V0A1,BMP2K,BPGM,BTG2,C3,CA1,CAST,CIR1,CLIC2,CTSE,DAAM1,DCAF11,DCUN1D1,ELL2,ENDOD1,ERMAP,FBXO34,GATA1,GDE1,GYPC,GYPE,HBD,HEBP1,ICAM4,KAT2B,KEL,KHNYN,LMO2,LRP10,MAP2K3,MARCH2,MBOAT2,MYL4,NCOA4,NUDT4,OPTN,PDZK1IP1,PICALM,PPP2R5B,PQLC1,RANBP10,RHCE,RIOK3,RNF19A,SDCBP,SEC14L1,SELENBP1,SIDT2,SLC22A4,SYNJ1,TAL1,TRAK2,UCP2,USP15,YPEL5
HALLMARK_NOTCH_SIGNALING	1.2e-03	2.9e-03	5017	32	15	23467	ARRB1,CCND1,DTX1,DTX2,DTX4,FZD1,HES1,HEYL,NOTCH2,PPARD,PSEN2,PSENEN,ST3GAL6,TCF7L2,WNT2
HALLMARK_PROTEIN_SECRETION	2.2e-03	5.3e-03	5017	96	33	23467	AP1G1,AP2M1,AP2S1,ARF1,ARFGAP3,ARFGEF2,ATP6V1H,CD63,CLN5,COPB2,CTSC,ERGIC3,GOSR2,NAPA,RAB14,RAB22A,RAB2A,RAB9A,RER1,SCAMP3,SEC22B,SGMS1,SNAP23,SSPN,STAM,STX12,STX7,TMED10,TSPAN8,VAMP3,VPS45,VPS4B,YKT6
HALLMARK_PEROXISOME	4.8e-03	1.1e-02	5017	104	34	23467	ABCB1,ABCB4,ABCC5,ABCD2,ABCD3,ACOX1,ACSL5,ALDH9A1,ATXN1,BCL10,CADM1,CRABP2,CRAT,DHRS3,DIO1,EHHADH,FABP6,GSTK1,HSD17B11,HSD17B4,HSD3B7,IDH2,MVP,PEX13,PEX2,RETSAT,SCGB1A1,SCP2,SLC25A19,SOD2,STS,TSPO,VPS4B,YWHAH
HALLMARK_UV_RESPONSE_DN	6.2e-03	1.3e-02	5017	144	44	23467	ARHGEF9,ATP2B4,ATP2C1,ATXN1,BHLHE40,CELF2,COL1A2,DAB2,DBP,DLC1,DLG1,DYRK1A,ERBB2,FBLN5,GRK5,HAS2,ID1,KIT,MAPK14,MGLL,MGMT,MIOS,MT1E,NFKB1,NIPBL,NOTCH2,PDGFRB,PIK3CD,PIK3R3,PMP22,PRDM2,PRKCE,PTGFR,PTPRM,RBPMS,RUNX1,SMAD3,SMAD7,SPOP,SRI,SYNE1,TFPI,TGFBR2,WDR37
HALLMARK_ESTROGEN_RESPONSE_LATE	6.6e-03	1.4e-02	5017	200	58	23467	ABCA3,ACOX2,AFF1,AGR2,ALDH3B1,AMFR,ATP2B4,BAG1,BATF,BCL2,CCND1,CISH,CLIC3,CPE,CXCL12,DNAJC1,EMP2,FABP5,FGFR3,HOMER2,HSPB8,IDH2,IGFBP4,ISG20,JAK1,JAK2,KCNK5,KLF4,KRT13,LLGL2,LSR,LTF,NBL1,NPY1R,OPN3,PAPSS2,PGR,PTGER3,PTGES,PTPN6,RAB31,RPS6KA2,S100A9,SERPINA1,SERPINA3,SERPINA5,SLC24A3,ST14,TFF1,TFF3,TJP3,TMPRSS3,TOB1,TPSAB1,TSPAN13,TSTA3,UNC13B,XBP1
HALLMARK_BILE_ACID_METABOLISM	9.4e-03	1.9e-02	5017	112	35	23467	ABCA2,ABCA3,ABCA6,ABCA8,ABCA9,ABCD2,ABCD3,ACSL5,ALDH9A1,AMACR,AQP9,AR,ATXN1,CROT,CYP27A1,CYP7B1,DIO1,DIO2,GNMT,GSTK1,HSD17B11,HSD17B4,HSD17B6,HSD3B7,IDH2,LCK,NR3C2,OPTN,PAOX,PEX13,PNPLA8,RBP1,RETSAT,SCP2,SLC23A1
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.0e-02	2.0e-02	5017	200	57	23467	ABAT,ABCA3,AFF1,ALDH3B1,AMFR,AQP3,AR,BAG1,BCL2,BHLHE40,CANT1,CBFA2T3,CCND1,CISH,CLIC3,CXCL12,DHRS3,DLC1,ELF1,ENDOD1,GFRA1,HES1,HSPB8,IGFBP4,JAK2,KCNK5,KLF10,KLF4,KRT13,MAST4,MLPH,MREG,MSMB,MUC1,NBL1,NPY1R,OPN3,P2RY2,PAPSS2,PGR,PTGES,RAB31,RARA,RASGRP1,RPS6KA2,SLC1A1,SLC24A3,SLC37A1,TFF1,TFF3,TGM2,TJP3,TMEM164,TMPRSS3,TOB1,XBP1,ZNF185
HALLMARK_ANGIOGENESIS	1.3e-02	2.4e-02	5017	36	14	23467	CXCL6,KCNJ8,LPL,LUM,OLR1,PRG2,PTK2,S100A4,SERPINA5,SLCO2A1,THBD,TIMP1,TNFRSF21,VCAN
HALLMARK_ANDROGEN_RESPONSE	1.6e-02	2.8e-02	5017	100	31	23467	AKT1,ALDH1A3,APPBP2,ARID5B,B2M,BMPR1B,CAMKK2,CCND1,CDK6,DNAJB9,ELL2,GPD1L,HOMER2,HPGD,IQGAP2,MAK,MYL12A,NCOA4,NKX3-1,PMEPA1,PTK2B,SAT1,SPCS3,SPDEF,STEAP4,TMEM50A,TMPRSS2,TNFAIP8,UAP1,UBE2J1,VAPA
HALLMARK_FATTY_ACID_METABOLISM	3.2e-02	5.3e-02	5017	158	44	23467	ACADS,ACOX1,ACSL5,ACSM3,ADH1C,ALAD,ALDH9A1,AOC3,AQP7,BMPR1B,CD1D,CD36,CRAT,CYP4A11,CYP4A22,DECR1,EHHADH,ETFDH,FMO1,G0S2,GLUL,GPD1,HADHB,HPGD,HSD17B11,HSD17B4,IL4I1,INMT,LTC4S,MAOA,MCEE,MGLL,PPARA,PSME1,RAP1GDS1,RDH16,RETSAT,SERINC1,TDO2,TP53INP2,UBE2L6,VNN1,XIST,YWHAH
HALLMARK_UV_RESPONSE_UP	3.2e-02	5.3e-02	5017	158	44	23467	ABCB1,AP2S1,AQP3,ARRB2,BAK1,BMP2,BTG1,BTG2,CDKN1C,CDO1,CNP,CXCL2,CYB5R1,DGAT1,FMO1,GCH1,GPX3,GRINA,HLA-F,ICAM1,IRF1,JUNB,LYN,MAOA,MARK2,MGAT1,NAT1,NFKBIA,NTRK3,NXF1,PLCL1,PPP1R2,PRKACA,RAB27A,RASGRP1,RPN1,RRAD,RXRB,SLC6A12,SOD2,STARD3,TAP1,TMBIM6,YKT6
HALLMARK_ADIPOGENESIS	3.4e-02	5.5e-02	5017	200	54	23467	ABCB8,ACADS,ACOX1,AGPAT3,ALDH2,ARAF,ATP1B3,BCL6,C3,CD151,CD302,CD36,CDKN2C,CMPK1,CRAT,CYP4B1,DECR1,DGAT1,DHRS7,DHRS7B,DNAJB9,DNAJC15,DRAM2,ELMOD3,ENPP2,FABP4,FZD4,GADD45A,GPX3,HSPB8,IFNGR1,ITGA7,ITIH5,LAMA4,LPCAT3,LPL,LTC4S,MGLL,MRAP,ORM1,PQLC3,PTGER3,RETN,RETSAT,RIOK3,RNF11,SCP2,SLC27A1,SORBS1,SSPN,STAT5A,TANK,TOB1,UCP2

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

5.13 READ

5.13.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.13.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.14 KIRC

5.14.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	1365	200	57	23467	AP3S1,APEX1,BUB3,CCT4,CCT7,CDC20,CDK4,CLNS1A,EEF1B2,EIF3D,ERH,FBL,GNL3,HNRNPA1,HPRT1,HSP90AB1,HSPD1,IARS,IMPDH2,LSM2,MCM6,NAP1L1,NME1,NOP56,NPM1,PABPC4,PHB2,PRDX4,PRPS2,PSMA1,PSMA6,PSMD7,PSMD8,PWP1,RANBP1,RFC4,RPL14,RPL18,RPL22,RPL34,RPLP0,RPS10,RPS2,RPS3,RPS5,RPS6,RRP9,RSL1D1,SF3B3,SNRPA,SNRPB2,SNRPD2,SNRPG,SRM,SSBP1,TCP1,VBP1
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	1365	200	41	23467	ASF1B,AURKB,BUB1B,CCNB2,CDC20,CDC25B,CDCA8,CDK1,CDK4,CDKN2A,CDKN3,CHEK1,CKS2,DEPDC1,DLGAP5,DONSON,E2F8,HMMR,KIF18B,KIF2C,KIF4A,MCM6,MELK,NAA38,NAP1L1,NME1,NOP56,PLK1,PRDX4,PRPS1,PTTG1,RAD1,RANBP1,RBBP7,RNASEH2A,RRM2,SLBP,SSRP1,STMN1,TRIP13,TUBB
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	1365	200	36	23467	AURKB,BUB3,CCNB2,CCNF,CDC20,CDC25B,CDK1,CDK4,CDKN3,CENPA,CHEK1,CKS2,DKC1,EFNA5,EXO1,HIST1H2BK,HMGN2,HMMR,KIF11,KIF2C,KIF4A,MCM6,MNAT1,MT2A,NEK2,PBK,PLK1,PRC1,PTTG1,PTTG3P,SLC7A1,SLC7A5,STMN1,TGFB1,TRAIP,TTK
HALLMARK_MYC_TARGETS_V2	8.0e-07	9.5e-06	1365	58	15	23467	CDK4,EXOSC5,GNL3,HSPD1,LAS1L,MRTO4,NOP56,NPM1,PLK1,PRMT3,RABEPK,RCL1,RRP9,SRM,WDR74
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	7.6e-06	7.6e-05	1365	113	20	23467	ASNS,DKC1,EXOSC1,EXOSC5,IARS,IGFBP1,KDELR3,KHSRP,NOP56,NPM1,PAIP1,PDIA5,PSAT1,RPS14,RRP9,SEC11A,SHC1,SLC7A5,SPCS1,TSPYL2
HALLMARK_SPERMATOGENESIS	3.5e-05	2.9e-04	1365	135	21	23467	ACRV1,CCNA1,CCNB2,CCT6B,CDK1,CDKN3,CLGN,CRISP2,CSNK2A2,DMC1,GAD1,KIF2C,MAST2,NAA11,NEK2,PARP2,PHF7,PSMG1,RFC4,TTK,TUBA3C
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	2.6e-04	1.8e-03	1365	200	25	23467	ADAM12,AREG,CADM1,CDH11,COL11A1,CTHRC1,GPC1,HTRA1,ITGB5,LAMA3,LGALS1,LOXL2,LRRC15,MATN3,MXRA5,PLOD1,PRRX1,PTHLH,QSOX1,SCG2,SERPINE1,SPOCK1,TGFB1,TGFBI,VIM
HALLMARK_GLYCOLYSIS	1.4e-03	7.9e-03	1365	200	23	23467	ADORA2B,ARTN,CDK1,CENPA,CHPF,DEPDC1,EFNA3,EXT2,FUT8,G6PD,GPC1,HMMR,IRS2,KDELR3,KIF20A,NDST3,NSDHL,PLOD1,PRPS1,QSOX1,RBCK1,STMN1,TGFBI
HALLMARK_MTORC1_SIGNALING	1.4e-03	7.9e-03	1365	200	23	23467	ACACA,ASNS,CCNF,DHCR7,EBP,FADS1,G6PD,GLA,GMPS,HPRT1,HSPD1,PLK1,POLR3G,PSAT1,PSMB5,PSMG1,RRM2,RRP9,SEC11A,SLC2A1,SLC2A3,SLC7A5,TRIB3
HALLMARK_ESTROGEN_RESPONSE_LATE	3.1e-03	1.6e-02	1365	200	22	23467	AREG,BLVRB,BTG3,CCNA1,CDC20,DHCR7,DHRS2,DLG5,FLNB,GLA,HPRT1,KIF20A,KRT19,NMU,OPN3,PKP3,PLAC1,RBBP8,RNASEH2A,SEMA3B,SLC16A1,SLC7A5
HALLMARK_DNA_REPAIR	6.5e-03	2.9e-02	1365	150	17	23467	BCAP31,CETN2,DGUOK,ERCC1,GTF2H5,HPRT1,IMPDH2,MRPL40,NME1,POLA1,POLR1D,PRIM1,RFC4,SF3A3,SSRP1,TAF12,TAF9
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.3e-02	5.4e-02	1365	200	20	23467	AREG,BLVRB,DHCR7,DHRS2,FLNB,GLA,KRT15,KRT19,MYBL1,OPN3,RBBP8,SEC14L2,SEMA3B,SLC16A1,SLC19A2,SLC2A1,SLC7A5,TIPARP,TMEM164,TSKU

5.14.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	2326	200	75	23467	B2M,CCL2,CCL22,CCL4,CCL5,CCND2,CCR2,CCR5,CD1D,CD2,CD247,CD3E,CD3G,CD4,CD74,CD8A,CD8B,CFP,CSK,CTSS,CXCL9,CXCR3,ETS1,FASLG,FGR,GBP2,GPR65,GZMA,GZMB,HCLS1,HDAC9,HLA-A,HLA-DMB,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,HLA-G,IFNAR2,IGSF6,IKBKB,IL12RB1,IL16,IL2RB,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LTB,LYN,MAP4K1,NCK1,NCR1,NLRP3,NOS2,PRF1,PRKCB,PTPN6,PTPRC,SIT1,SPI1,STAT1,TAP1,TAP2,TAPBP,TLR1,TNF,TRAT1,WARS,WAS,ZAP70
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	2326	200	73	23467	ADAR,APOL6,B2M,BANK1,BATF2,BTG1,CASP1,CCL2,CCL5,CD74,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL10,CXCL11,CXCL9,DDX58,DDX60,EPSTI1,FGL2,GBP4,GPR18,GZMA,HLA-A,HLA-B,HLA-DQA1,HLA-DRB1,HLA-G,IFIH1,IFIT3,IFNAR2,IL10RA,IL2RB,IRF1,IRF2,IRF8,IRF9,ITGB7,JAK2,KLRK1,LAP3,LCP2,MX1,NFKB1,NLRC5,OAS2,P2RY14,PARP14,PDE4B,PELI1,PSMB9,PTPN6,RIPK1,RSAD2,RTP4,SAMD9L,SECTM1,SELP,SLAMF7,STAT1,TAP1,TAPBP,TDRD7,TNFAIP3,TNFAIP6,TNFSF10,TRAFD1,TRIM26,VAMP5,VCAM1,WARS,ZBP1
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	2326	97	37	23467	ADAR,B2M,BATF2,CASP1,CCRL2,CD74,CMPK2,CXCL10,CXCL11,DDX60,EPSTI1,GBP2,GBP4,GMPR,HLA-C,IFIH1,IFIT3,IRF1,IRF2,IRF9,LAP3,LPAR6,MX1,NCOA7,PARP14,PARP9,PSMB9,RSAD2,RTP4,SAMD9,SAMD9L,SELL,TAP1,TDRD7,TRAFD1,TRIM26,WARS
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	2326	200	52	23467	C3AR1,CAB39L,CBL,CCND2,CD37,CDADC1,CLEC4A,CMKLR1,CTSS,CXCL10,DOCK2,ENG,ETS1,ETV5,FLT4,HBEGF,HDAC9,IKZF1,IL10RA,IL33,IRF8,ITGB2,JUP,LAT2,LCP1,MAP3K1,MAP4K1,MAP7,MTMR10,MYCN,PECAM1,PIGR,PLAT,PLVAP,PRDM1,RABGAP1L,RETN,SATB1,SDCCAG8,SOX9,SPON1,SPRY2,ST6GAL1,TLR8,TNFAIP3,TNFRSF1B,TRAF1,TRIB2,TSPAN7,USH1C,WDR33,WNT7A
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	2326	200	50	23467	APLNR,C3AR1,CALCRL,CCL17,CCL2,CCL22,CCL5,CCR7,CCRL2,CD48,CLEC5A,CMKLR1,CX3CL1,CXCL10,CXCL11,CXCL9,CYBB,HBEGF,HPN,IFNAR1,IL10RA,IL2RB,IRF1,ITGB8,KCNA3,LCK,LCP2,LYN,NFKB1,NLRP3,NMUR1,NOD2,OLR1,PDE4B,PIK3R5,PTGER4,PTGIR,RASGRP1,RNF144B,RTP4,SCARF1,SELE,SELL,SEMA4D,TACR1,TAPBP,TLR1,TNFAIP6,TNFRSF1B,TNFSF10
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	4.0e-07	2326	200	46	23467	AMACR,BCL2,CCND2,CCR4,CD48,CD79B,CDC42SE2,CXCL10,CYFIP1,EOMES,FAM126B,FGL2,GBP4,GPR65,IKZF2,IL10RA,IL1RL1,IL2RB,IRF6,IRF8,ITGA6,LRRC8C,LTB,MAP6,MYO1C,PRKCH,PTH1R,RABGAP1L,RHOH,S100A1,SELL,SELP,SH3BGRL2,SHE,SNX9,SPRED2,SPRY4,SWAP70,SYNGR2,TIAM1,TLR7,TNFRSF1B,TNFRSF21,TNFRSF8,TNFSF10,TRAF1
HALLMARK_COMPLEMENT	1.0e-07	8.0e-07	2326	200	45	23467	ADRA2B,CALM1,CASP1,CASP10,CCL5,CD36,CLU,CTSS,CXCL1,DGKH,DOCK10,DOCK4,DPP4,EHD1,FCN1,GNG2,GNGT2,GZMA,GZMB,GZMK,IRF1,IRF2,ITGAM,JAK2,KLKB1,KYNU,LAP3,LCK,LCP2,LTF,LYN,OLR1,PDGFB,PIK3CG,PIK3R5,PLAT,PLEK,PSMB9,RASGRP1,SH2B3,SRC,TNFAIP3,USP8,WAS,ZEB1
HALLMARK_MITOTIC_SPINDLE	1.8e-06	1.2e-05	2326	199	42	23467	APC,ARAP3,ARHGAP27,ARHGAP29,ARHGEF12,ARHGEF3,ARL8A,BCR,CDC42BPA,CDC42EP2,CDC42EP4,DOCK2,DOCK4,EPB41L2,EZR,FARP1,FGD6,GSN,KIF3C,KIF5B,KIFAP3,MAP1S,MAP3K11,MYH10,MYH9,NCK1,PCNT,PKD2,PREX1,RAB3GAP1,RABGAP1,RALBP1,RAPGEF5,RASAL2,ROCK1,SOS1,SPTAN1,SPTBN1,SUN2,TAOK2,TIAM1,WASL
HALLMARK_IL6_JAK_STAT3_SIGNALING	2.9e-05	1.5e-04	2326	87	22	23467	ACVRL1,CBL,CD36,CSF2RB,CXCL1,CXCL10,CXCL11,CXCL9,IFNAR1,IL12RB1,IL17RB,IL6ST,IRF1,IRF9,ITGA4,LEPR,LTB,PIK3R5,STAT1,TNF,TNFRSF1B,TNFRSF21
HALLMARK_MYOGENESIS	2.9e-05	1.5e-04	2326	200	39	23467	APLNR,APP,CD36,CLU,ERBB3,FOXO4,GJA5,GPX3,GSN,HBEGF,HDAC5,HRC,HSPB8,IGFBP7,ITGA7,KIFC3,MEF2A,MEF2C,MEF2D,MYH11,MYH9,MYL3,MYO1C,MYOM1,MYOM2,MYOZ1,NOS1,NOTCH1,PICK1,PYGM,RB1,RIT1,SMTN,SOD3,SPTAN1,SVIL,SYNGR2,VIPR1,WWTR1
HALLMARK_ESTROGEN_RESPONSE_EARLY	6.6e-05	3.0e-04	2326	200	38	23467	ABAT,AFF1,ASB13,BCL11B,BCL2,CBFA2T3,CCND1,CELSR2,DLC1,ELF3,ENDOD1,ESRP2,FARP1,FOXC1,HSPB8,IL17RB,IL6ST,JAK2,KCNK5,MAST4,NPY1R,PDZK1,PGR,PODXL,RAB17,RASGRP1,SIAH2,SLC1A1,SLC1A4,SLC27A2,SVIL,TFF3,TGIF2,TIAM1,TMPRSS3,TOB1,TTC39A,WWC1
HALLMARK_TNFA_SIGNALING_VIA_NFKB	1.5e-04	6.0e-04	2326	200	37	23467	BTG1,CCL2,CCL4,CCL5,CCND1,CCRL2,CFLAR,CXCL1,CXCL10,CXCL11,DDX58,DNAJB4,DRAM1,EHD1,ETS2,HBEGF,IFIH1,IL6ST,IRF1,KLF2,KYNU,MAP2K3,NFKB1,OLR1,PDE4B,PLEK,PLK2,PTGER4,RCAN1,REL,SNN,TAP1,TNF,TNFAIP3,TNFAIP6,TNIP1,TRAF1
HALLMARK_HEME_METABOLISM	3.1e-04	1.2e-03	2326	200	36	23467	ABCG2,ACP5,ADD1,ALAD,ALDH1L1,ALDH6A1,ANK1,ARHGEF12,ATP6V0A1,BTRC,CAT,CLCN3,CLIC2,DCAF11,ENDOD1,EZH1,FBXO9,FTCD,GYPE,IGSF3,LMO2,MAP2K3,MFHAS1,OPTN,PICALM,PPP2R5B,PRDX2,RBM38,RIOK3,SEC14L1,SELENBP1,SLC6A9,SYNJ1,TAL1,TFDP2,TNS1
HALLMARK_APOPTOSIS	5.2e-04	1.9e-03	2326	161	30	23467	ADD1,APP,CASP1,CCND1,CCND2,CD2,CFLAR,CLU,CYLD,ERBB2,ERBB3,FASLG,FEZ1,GPX3,GSN,IRF1,PEA15,PLAT,PLCB2,PPP2R5B,PRF1,PTK2,ROCK1,SATB1,SPTAN1,TAP1,TGFBR3,TIMP3,TNF,TNFSF10
HALLMARK_P53_PATHWAY	6.3e-04	2.1e-03	2326	200	35	23467	ABAT,APP,BTG1,CASP1,CCND2,CTSF,CYFIP2,DEF6,DRAM1,EPHA2,ERCC5,HBEGF,HEXIM1,HSPA4L,ISCU,JAG2,LRMP,NOTCH1,PITPNC1,PLK2,PPM1D,PRKAB1,PRMT2,RALGDS,RB1,ST14,STOM,TAP1,TCN2,TM4SF1,TOB1,TP63,TRAFD1,VDR,WWP1
HALLMARK_APICAL_JUNCTION	2.4e-03	7.6e-03	2326	200	33	23467	AKT3,CD34,CLDN4,CLDN5,CRB3,CTNNA1,CTNND1,CX3CL1,EPB41L2,GRB7,ICAM2,ITGA9,JAM3,JUP,MAP4K2,MYH10,MYH9,NFASC,PARD6G,PBX2,PECAM1,PIK3R3,PTK2,PTPRC,SRC,SYK,TAOK2,TJP1,TNFRSF11B,TRAF1,VCAM1,WASL,YWHAH
HALLMARK_ESTROGEN_RESPONSE_LATE	4.5e-03	1.3e-02	2326	200	32	23467	ACOX2,AFF1,ALDH3A2,BCL2,CCND1,CELSR2,CXCL14,FARP1,FGFR3,FOXC1,HSPA4L,HSPB8,IL17RB,IL6ST,JAK1,JAK2,KCNK5,LLGL2,LTF,NPY1R,PDZK1,PGR,PTPN6,SIAH2,SLC1A4,SLC27A2,ST14,TFF3,TIAM1,TMPRSS3,TOB1,UNC13B
HALLMARK_XENOBIOTIC_METABOLISM	4.5e-03	1.3e-02	2326	200	32	23467	ABCD2,ACOX1,ACOX2,ACSM1,ALDH2,ALDH9A1,ANGPTL3,ATOH8,CAT,CD36,CNDP2,CYFIP2,CYP17A1,DDC,ENPEP,EPHA2,ETFDH,ETS2,FBP1,G6PC,GCNT2,GSTM4,IRF8,JUP,KYNU,LEAP2,NDRG2,PINK1,PPARD,SPINT2,UPB1,VNN1
HALLMARK_WNT_BETA_CATENIN_SIGNALING	6.8e-03	1.8e-02	2326	42	10	23467	CCND2,DLL1,FRAT1,HDAC5,JAG2,NOTCH1,NUMB,PPARD,WNT1,WNT6
HALLMARK_APICAL_SURFACE	9.6e-03	2.4e-02	2326	44	10	23467	AFAP1L2,APP,CX3CL1,FLOT2,IL2RB,LYN,MAL,PKHD1,SLC22A12,SLC2A4
HALLMARK_BILE_ACID_METABOLISM	1.4e-02	3.3e-02	2326	112	19	23467	ABCA8,ABCD2,ABCD3,ALDH1A1,ALDH8A1,ALDH9A1,AMACR,BBOX1,CAT,CYP39A1,CYP7B1,EPHX2,GC,LCK,LIPE,OPTN,RXRG,SLC23A1,SLC27A2
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.5e-02	3.3e-02	2326	105	18	23467	CAB39L,DAPP1,DUSP3,FASLG,LCK,MAP2K3,MAPK10,NCK1,PIK3R3,PPP2R1B,PRKAA2,PRKCB,RALB,RIPK1,RIT1,RPS6KA1,SLA,TIAM1
HALLMARK_FATTY_ACID_METABOLISM	2.3e-02	5.0e-02	2326	158	24	23467	ACAA2,ACADL,ACOX1,ALAD,ALDH1A1,ALDH3A2,ALDH9A1,AOC3,CA4,CD1D,CD36,CPT1A,CPT2,CYP4A11,CYP4A22,EHHADH,ETFDH,HAO2,HIBCH,INMT,LTC4S,SDHC,VNN1,YWHAH
HALLMARK_TGF_BETA_SIGNALING	3.8e-02	7.8e-02	2326	54	10	23467	APC,ARID4B,ENG,PPM1A,SKI,SMAD6,SPTBN1,THBS1,TJP1,WWTR1
HALLMARK_PANCREAS_BETA_CELLS	4.0e-02	8.0e-02	2326	40	8	23467	AKT3,DPP4,HNF1A,LMO2,PKLR,SCGN,STXBP1,VDR
HALLMARK_UV_RESPONSE_DN	4.6e-02	8.9e-02	2326	144	21	23467	AKT3,CDC42BPA,CELF2,DAB2,DDAH1,DLC1,DYRK1A,ERBB2,GRK5,INPP4B,NFKB1,PIK3CD,PIK3R3,PPARG,PTPRM,SPOP,SYNE1,TGFBR2,TGFBR3,TJP1,YTHDC1
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	4.9e-02	9.1e-02	2326	49	9	23467	CAT,EGLN2,FES,GPX3,HHEX,IPCEF1,MSRA,NDUFS2,PRDX2

5.15 LIHC

5.15.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	2793	200	101	23467	APEX1,C1QBP,CAD,CBX3,CCT4,CCT5,CCT7,CDC20,CDC45,CDK4,COX5A,EEF1B2,EIF3B,EIF3D,EIF4A1,ERH,EXOSC7,FBL,GNL3,H2AFZ,HDAC2,HDDC2,HNRNPA1,HNRNPA3,HNRNPD,HNRNPU,ILF2,IMPDH2,KARS,KPNB1,LSM2,LSM7,MAD2L1,MCM2,MCM5,MCM7,MRPL23,MRPL9,NAP1L1,NCBP2,NHP2,NOP56,NPM1,ODC1,PA2G4,PABPC1,PABPC4,PHB,PHB2,POLE3,PPIA,PPM1G,PRPF31,PSMA4,PSMB2,PSMB3,PSMC4,PSMD3,PSMD7,PTGES3,PWP1,RAN,RANBP1,RFC4,RNPS1,RPL14,RPL18,RPL22,RPL34,RPLP0,RPS10,RPS2,RPS3,RPS5,RPS6,RRP9,RSL1D1,SET,SF3B3,SLC25A3,SMARCC1,SNRPA,SNRPA1,SNRPB2,SNRPD1,SNRPD2,SNRPD3,SNRPG,SRM,SRPK1,STARD7,TARDBP,TCP1,TRIM28,TXNL4A,TYMS,U2AF1,UBE2L3,XRCC6,YWHAE,YWHAQ
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	2793	200	94	23467	ASF1B,AURKA,AURKB,BIRC5,BUB1B,CCNB2,CDC20,CDC25A,CDCA3,CDCA8,CDK1,CDK4,CDKN2A,CDKN3,CENPM,CHEK1,CHEK2,CKS1B,CKS2,CSE1L,DCTPP1,DEPDC1,DLGAP5,DSCC1,ESPL1,EXOSC8,EZH2,GINS1,GINS3,GINS4,H2AFX,H2AFZ,HMGA1,HNRNPD,ILF3,KIF18B,KIF22,KIF2C,KIF4A,LIG1,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM5,MCM7,MELK,MKI67,MSH2,MXD3,MYBL2,NAA38,NAP1L1,NASP,NCAPD2,NOP56,NUDT21,PA2G4,PHF5A,PLK1,POLA2,POLD1,POLE,POP7,PPP1R8,PRIM2,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD51C,RAN,RANBP1,RFC2,RNASEH2A,RPA1,RPA2,RRM2,SNRPB,SPC25,SSRP1,STMN1,SUV39H1,TACC3,TBRG4,TCF19,TOP2A,TRIP13,TUBB,UBE2S,UBE2T,WDR90,XRCC6
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	2793	200	92	23467	AURKA,AURKB,BIRC5,BUB1,CBX1,CCNB2,CCNF,CDC20,CDC25A,CDC45,CDC6,CDK1,CDK4,CDKN3,CENPA,CENPF,CHAF1A,CHEK1,CHMP1A,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F2,E2F4,ESPL1,EWSR1,EXO1,EZH2,GINS2,H2AFV,H2AFX,H2AFZ,HMGA1,HMGN2,HNRNPD,HNRNPU,HOXC10,ILF3,KATNA1,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNB1,LIG3,LMNB1,MAD2L1,MARCKS,MCM2,MCM3,MCM5,MKI67,MTF2,MYBL2,NASP,NDC80,NEK2,NUSAP1,ODC1,PBK,PLK1,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,PTTG3P,RACGAP1,RAD54L,RBM14,RPA2,SFPQ,SMARCC1,SNRPD1,STIL,STMN1,SUV39H1,TACC3,TNPO2,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S,UPF1
HALLMARK_DNA_REPAIR	0.0e+00	0.0e+00	2793	150	62	23467	AAAS,ADCY6,BCAM,BCAP31,BOLA2,BRF2,CANT1,CETN2,DAD1,ERCC1,FEN1,GPX4,GTF2A2,GTF2F1,GTF2H1,GTF3C5,IMPDH2,ITPA,LIG1,NCBP2,NME3,NME4,NT5C,NUDT21,POLA1,POLA2,POLD1,POLL,POLR1C,POLR1D,POLR2C,POLR2D,POLR2F,POLR2G,POLR2H,POLR2J,POLR3C,PRIM1,RAD51,RAD52,RAE1,RALA,RBX1,RFC2,RFC4,RFC5,RPA2,SAC3D1,SF3A3,SNAPC4,SSRP1,STX3,SUPT4H1,SUPT5H,TAF12,TAF1C,TAF9,TARBP2,TSG101,TYMS,ZNRD1,ZWINT
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	2793	58	27	23467	BYSL,CBX3,CDK4,DCTPP1,EXOSC5,GNL3,LAS1L,MCM5,MRTO4,MYBBP1A,NIP7,NOP2,NOP56,NPM1,PA2G4,PES1,PHB,PLK1,PPAN,RRP12,RRP9,SLC19A1,SLC29A2,SRM,TBRG4,TCOF1,WDR74
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	2793	199	57	23467	ANLN,ARFIP2,ATG4B,AURKA,BCR,BIRC5,BUB1,CAPZB,CCNB2,CDC42,CDK1,CENPF,CENPJ,CEP250,CEP72,CNTROB,CSNK1D,CYTH2,DLGAP5,ESPL1,FLNB,GEMIN4,KATNA1,KATNB1,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KNTC1,KPTN,LMNB1,LRPPRC,MAPRE1,MARCKS,MARK4,NDC80,NEK2,NUSAP1,PIF1,PLK1,PRC1,PXN,RACGAP1,RHOT2,SAC3D1,SPTAN1,TOP2A,TPX2,TSC1,TTK,TUBD1,TUBGCP2,UXT,WASF2,YWHAE
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	5.5e-06	3.9e-05	2793	113	31	23467	ALDH18A1,ARFGAP1,BANF1,CKS1B,CXXC1,DCP2,DCTN1,DKC1,EDC4,EEF2,EIF4A1,EIF4A3,EXOSC1,EXOSC10,EXOSC2,EXOSC5,FUS,GEMIN4,H2AFX,IMP3,KHSRP,LSM4,NFYA,NHP2,NOP56,NPM1,POP4,RPS14,RRP9,SEC11A,ZBTB17
HALLMARK_GLYCOLYSIS	4.2e-03	2.3e-02	2793	200	37	23467	ADORA2B,AGRN,ALDOA,ANKZF1,AURKA,B3GALT6,B4GALT2,B4GALT7,CASP6,CDK1,CENPA,CHST12,CHST6,COG2,DEPDC1,EFNA3,ENO1,FKBP4,G6PD,GAL3ST1,GALE,GYS1,HS6ST2,KIF20A,MIOX,NASP,PGAM2,POLR3K,PPFIA4,PPIA,PSMC4,PYGB,RARS,SRD5A3,STMN1,TPI1,XYLT2
HALLMARK_MTORC1_SIGNALING	4.2e-03	2.3e-02	2793	200	37	23467	ALDOA,ARPC5L,AURKA,BUB1,CACYBP,CCNF,CCT6A,CDC25A,EEF1E1,ENO1,G6PD,GGA2,GTF2H1,HMBS,MCM2,NFYC,NUFIP1,PDAP1,PFKL,PLK1,PPIA,PSMA4,PSMB5,PSMC4,PSMD13,PSPH,RPA1,RRM2,RRP9,SEC11A,SERPINH1,SLC1A5,SLC9A3R1,STIP1,TOMM40,TPI1,YKT6
HALLMARK_UV_RESPONSE_UP	6.4e-03	3.2e-02	2793	158	30	23467	ALDOA,ARRB2,ATP6V1F,BSG,CHKA,CLCN2,CNP,COL2A1,EIF2S3,FEN1,FKBP4,H2AFX,HNRNPU,KLHDC3,MRPL23,NKX2-5,PARP2,PDAP1,POLE3,POLG2,POLR2H,PRKCD,PRPF3,RFC4,SLC6A8,STARD3,STIP1,STK25,TYRO3,YKT6
HALLMARK_SPERMATOGENESIS	8.8e-03	4.0e-02	2793	135	26	23467	AURKA,BUB1,CCNB2,CDK1,CDKN3,CHRM4,CNIH2,COIL,CSNK2A2,DBF4,DMRT1,EZH2,IP6K1,KIF2C,MAST2,NCAPH,NEK2,NF2,PARP2,PCSK1N,PGK2,RFC4,STRBP,TNNI3,TSN,TTK

5.15.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	2184	200	78	23467	APOL6,AUTS2,B2M,BST2,C1R,C1S,CASP1,CASP7,CCL2,CCL5,CD274,CD69,CD74,CD86,CDKN1A,CFH,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL10,DDX60,DHX58,EIF4E3,FAS,FGL2,FPR1,GBP4,GCH1,GZMA,HLA-A,HLA-B,HLA-DMA,HLA-DRB1,HLA-G,ICAM1,IFI44,IFIH1,IFITM2,IL10RA,IL15,IL2RB,IL6,IL7,IRF8,ISOC1,ITGB7,JAK2,KLRK1,LAP3,LATS2,LCP2,LYSMD2,NAMPT,NFKBIA,OAS2,P2RY14,PARP14,PDE4B,PLSCR1,PTGS2,RIPK1,SAMD9L,SAMHD1,SELP,SERPING1,SOCS3,SOD2,ST3GAL5,ST8SIA4,STAT3,STAT4,TNFAIP2,TNFAIP3,TXNIP,UBE2L6,XAF1,ZNFX1
HALLMARK_XENOBIOTIC_METABOLISM	0.0e+00	0.0e+00	2184	200	77	23467	ABCD2,ABHD6,ADH1C,ALAS1,ALDH2,ALDH9A1,ANGPTL3,AOX1,AQP9,ARG1,ATOH8,CA2,CAT,CD36,CDA,CDO1,CES1,CNDP2,CRP,CSAD,CYB5A,CYP1A1,CYP1A2,CYP26A1,CYP27A1,CYP2C18,CYP2J2,CYP4F2,DCXR,ELOVL5,ENPEP,ESR1,ETFDH,ETS2,FAH,FAS,FBP1,FETUB,FMO3,GABARAPL1,GCH1,GCKR,GCLC,HRG,HSD11B1,IDH1,IGF1,IGFBP4,IL1R1,IRF8,ITIH4,MAN1A1,MAOA,MBL2,MCCC2,MTHFD1,PAPSS2,PC,PDK4,PINK1,PLG,PROS1,PTGR1,RBP4,SAR1B,SHMT2,SLC22A1,SLC35D1,SLC46A3,SLC6A12,TAT,TDO2,TMBIM6,TMEM176B,TTPA,UPB1,XDH
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	2184	200	76	23467	B2M,BCL3,CCL2,CCL22,CCL4,CCL5,CCND3,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3E,CD4,CD40LG,CD74,CD86,CD96,CFP,CSF1,CTSS,DEGS1,DYRK3,EGFR,ETS1,F2R,FAS,FGR,GPR65,GZMA,HCLS1,HDAC9,HLA-A,HLA-DMA,HLA-DMB,HLA-DRA,HLA-E,HLA-G,ICAM1,IFNGR1,IGSF6,IL12RB1,IL15,IL16,IL18RAP,IL2RB,IL6,IL7,INHBA,IRF8,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LY75,LYN,MBL2,NCK1,NCR1,NLRP3,PRF1,PRKCB,PTPRC,SPI1,SRGN,ST8SIA4,STAB1,STAT4,TLR2,TLR3,TRAT1,WAS
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	2184	200	74	23467	ABCA1,AHR,APLNR,AQP9,AXL,BST2,C3AR1,C5AR1,CALCRL,CCL2,CCL22,CCL5,CCR7,CCRL2,CD14,CD48,CD55,CD69,CDKN1A,CMKLR1,CSF1,CSF3R,CXCL10,CXCR6,CYBB,EDN1,FPR1,GCH1,GPR132,GPR183,HBEGF,ICAM1,IL10RA,IL15,IL18R1,IL18RAP,IL1R1,IL2RB,IL6,IL7R,INHBA,ITGB3,KCNA3,LCK,LCP2,LYN,MARCO,NAMPT,NFKBIA,NLRP3,NMUR1,OSMR,PCDH7,PDE4B,PIK3R5,PROK2,PTGER2,PTGER4,PTGIR,RASGRP1,RNF144B,SCARF1,SELE,SELL,SGMS2,SLAMF1,SLC1A2,SLC31A1,SLC31A2,SLC4A4,STAB1,TLR2,TLR3,TNFRSF1B
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	2184	200	70	23467	ABCA1,ATF3,BCL2A1,BCL3,BHLHE40,BIRC3,CCL2,CCL4,CCL5,CCRL2,CD44,CD69,CDKN1A,CEBPB,CSF1,CXCL10,CXCL2,DNAJB4,DUSP1,EDN1,EGR1,EGR2,EGR3,ETS2,FOS,FOSB,G0S2,GADD45A,GCH1,GEM,GPR183,HBEGF,ICAM1,IER5,IFIH1,IL6,IL6ST,IL7R,INHBA,JUNB,KLF10,KLF2,KLF9,MSC,NAMPT,NFE2L2,NFKBIA,NR4A1,NR4A2,NR4A3,PDE4B,PHLDA1,PLEK,PLK2,PTGER4,PTGS2,PTX3,RCAN1,RHOB,SAT1,SGK1,SOCS3,SOD2,TANK,TIPARP,TLR2,TNFAIP2,TNFAIP3,ZBTB10,ZFP36
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	2184	200	69	23467	ADRA2B,APOC1,C1QC,C1R,C1S,C4BPB,C9,CA2,CASP1,CASP7,CCL5,CD36,CD40LG,CD55,CD59,CDA,CDH13,CEBPB,CFH,COL4A2,CP,CPM,CR1,CTSO,CTSS,DGKH,DOCK10,DOCK4,DOCK9,DPP4,DUSP6,F5,F8,FCN1,FDX1,FN1,FYN,GNB4,GNG2,GNGT2,GZMA,GZMK,IL6,JAK2,LAP3,LCK,LCP2,LIPA,LRP1,LTF,LYN,NOTCH4,PIK3CG,PIK3R5,PLEK,PLG,PLSCR1,PRCP,RASGRP1,S100A12,SERPINC1,SERPING1,SH2B3,TNFAIP3,USP15,VCPIP1,WAS,ZEB1,ZFPM2
HALLMARK_BILE_ACID_METABOLISM	0.0e+00	0.0e+00	2184	112	45	23467	ABCA1,ABCA2,ABCA5,ABCA6,ABCA8,ABCA9,ABCD2,ABCG8,ACSL1,ACSL5,AGXT,AKR1D1,ALDH1A1,ALDH8A1,ALDH9A1,AQP9,AR,BBOX1,CAT,CH25H,CYP27A1,CYP39A1,CYP7B1,CYP8B1,HAO1,HSD17B4,HSD17B6,IDH1,ISOC1,LCK,LIPE,LONP2,NR1H4,NR1I2,NUDT12,PEX12,PEX13,PEX19,PIPOX,PNPLA8,RXRG,SCP2,SLC27A2,SLC27A5,SULT1B1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	2184	200	59	23467	ABCB1,AKAP12,ANO1,ARG1,BIRC3,C3AR1,CA2,CD37,CFH,CMKLR1,CTSS,CXCL10,DOCK2,DUSP6,EMP1,ENG,EPB41L3,ETS1,EVI5,FLT4,G0S2,GLRX,GNG11,HBEGF,HDAC9,HSD11B1,IKZF1,IL10RA,IL33,IL7R,INHBA,IRF8,ITGB2,ITGBL1,LAPTM5,LCP1,NR1H4,NRP1,PDCD1LG2,PECAM1,PIGR,PLVAP,PRDM1,PTCD2,PTGS2,RABGAP1L,RBP4,SATB1,SERPINA3,SPARCL1,SPRY2,TFPI,TLR8,TMEM100,TMEM176B,TNFAIP3,TNFRSF1B,TOR1AIP2,USP12
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	2184	200	57	23467	ABCB1,ADAM19,AHR,AKAP2,BCL2,BHLHE40,BMPR2,CA2,CCND3,CCR4,CD44,CD48,CD81,CD86,CISH,CSF1,CST7,CXCL10,EMP1,ENPP1,EOMES,FAH,FGL2,GABARAPL1,GBP4,GPR65,IFNGR1,IKZF2,IL10RA,IL18R1,IL1RL1,IL2RB,IRF6,IRF8,ITGAV,LRRC8C,MAP6,NRP1,PHLDA1,PLSCR1,PRKCH,PTGER2,RABGAP1L,RHOB,RORA,SELL,SELP,SERPINC1,SHE,SLC39A8,SNX9,SOCS2,SPRY4,TNFRSF1B,TTC39B,TWSG1,WLS
HALLMARK_COAGULATION	0.0e+00	0.0e+00	2184	138	45	23467	A2M,ANXA1,APOC1,APOC3,C1R,C1S,C8A,C8B,C8G,C9,CFH,CFI,CTSO,DPP4,DUSP6,F12,F13B,F8,F9,FBN1,FGA,FN1,FYN,GDA,GNG12,HRG,ITGB3,LRP1,MASP2,MBL2,MST1,P2RY1,PECAM1,PLEK,PLG,PROS1,PROZ,RAPGEF3,RGN,SERPINC1,SERPING1,THBD,THBS1,TIMP3,VWF
HALLMARK_FATTY_ACID_METABOLISM	0.0e+00	0.0e+00	2184	158	46	23467	ACAA2,ACADL,ACADM,ACSL1,ACSL5,ADH1C,ADIPOR2,ALAD,ALDH1A1,ALDH9A1,AOC3,BCKDHB,CA2,CD1D,CD36,CPOX,CPT2,CYP1A1,CYP4A11,CYP4A22,DECR1,EHHADH,ELOVL5,ETFDH,FH,G0S2,GABARAPL1,GCDH,GPD1,GRHPR,HADH,HAO2,HIBCH,HPGD,HSD17B4,HSDL2,IDH1,INMT,MAOA,NBN,PPARA,RDH16,SDHD,SUCLG2,TDO2,UBE2L6
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	2184	87	31	23467	A2M,ACVRL1,CCR1,CD14,CD36,CD44,CSF1,CSF2RB,CSF3R,CXCL10,FAS,IFNGR1,IL12RB1,IL13RA1,IL18R1,IL1R1,IL6,IL6ST,IL7,ITGA4,ITGB3,LEPR,OSMR,PIK3R5,PLA2G2A,PTPN11,SOCS3,STAM2,STAT3,TLR2,TNFRSF1B
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	2184	200	50	23467	ABI3BP,ACTA2,CALD1,CD44,CD59,COL4A1,COL4A2,DCN,ECM2,FAS,FBLN2,FBLN5,FBN1,FGF2,FN1,FSTL1,GADD45A,GAS1,GEM,GLIPR1,IGFBP4,IL15,IL6,INHBA,ITGAV,ITGB3,LAMA3,LRP1,LUM,MFAP5,MYLK,NNMT,PTX3,RHOB,SAT1,SFRP1,SFRP4,SGCB,SLIT3,SNAI2,TAGLN,TGFBR3,THBS1,THBS2,TIMP3,TNFAIP3,TNFRSF11B,VEGFC,VIM,WIPF1
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	2184	97	32	23467	B2M,BST2,C1S,CASP1,CCRL2,CD74,CMPK2,CSF1,CXCL10,DDX60,DHX58,GBP4,GMPR,HLA-C,IFI44,IFIH1,IFITM2,IL15,IL7,LAP3,LPAR6,NCOA7,PARP14,PARP9,PLSCR1,SAMD9,SAMD9L,SELL,TRIM5,TXNIP,UBA7,UBE2L6
HALLMARK_ADIPOGENESIS	0.0e+00	0.0e+00	2184	200	46	23467	ABCA1,ACAA2,ACADL,ACADM,ADIPOR2,ALDH2,CAT,CD302,CD36,CMBL,COL15A1,COL4A1,CPT2,DBT,DECR1,DNAJB9,FABP4,FAH,GADD45A,GBE1,GHITM,HADH,HIBCH,IDH1,IFNGR1,ITGA7,ITSN1,LIFR,LIPE,MCCC1,MYLK,NKIRAS1,OMD,ORM1,PGM1,PPM1B,PPP1R15B,PTGER3,QDPR,RNF11,SCP2,SPARCL1,SULT1A1,TANK,TOB1,TST
HALLMARK_APOPTOSIS	0.0e+00	1.0e-07	2184	161	39	23467	ANXA1,ATF3,AVPR1A,BIRC3,CASP1,CASP7,CD14,CD2,CD44,CD69,CDKN1A,CTH,CYLD,DCN,DNAJC3,DPYD,EGR3,EMP1,F2R,FAS,FEZ1,GADD45A,GCH1,HGF,IFNGR1,IL6,LUM,PLCB2,PPP2R5B,PPP3R1,PRF1,RHOB,RNASEL,SAT1,SATB1,SOD2,TGFBR3,TIMP3,TXNIP
HALLMARK_ANDROGEN_RESPONSE	3.0e-07	8.0e-07	2184	100	27	23467	ABHD2,ADAMTS1,AKAP12,AZGP1,B2M,CCND3,CDC14B,DNAJB9,ELL2,ELOVL5,FKBP5,HERC3,HOMER2,HPGD,INSIG1,IQGAP2,ITGAV,LIFR,LMAN1,NCOA4,NKX3-1,SAT1,SEC24D,SGK1,SLC38A2,STEAP4,ZBTB10
HALLMARK_UV_RESPONSE_DN	2.6e-06	7.0e-06	2184	144	32	23467	APBB2,BCKDHB,BHLHE40,CDC42BPA,CELF2,CITED2,DDAH1,DLC1,DUSP1,EFEMP1,FBLN5,FHL2,FYN,GRK5,IGFBP5,INSIG1,ITGB3,KCNMA1,MAP1B,NEK7,NFIB,NR1D2,NR3C1,NRP1,PIK3R3,PTPRM,RND3,SNAI2,SYNE1,TFPI,TGFBR2,TGFBR3
HALLMARK_HEME_METABOLISM	2.8e-06	7.0e-06	2184	200	40	23467	ACSL6,AHSP,ALAD,ALDH1L1,ALDH6A1,ARHGEF12,ATG4A,CA2,CAST,CAT,CCND3,CPOX,DCUN1D1,ELL2,EPB42,ERMAP,GCLC,GDE1,GYPE,HBB,HBD,KAT2B,LMO2,MINPP1,MOCOS,NCOA4,NEK7,NNT,NR3C1,PC,PPP2R5B,RCL1,RNF123,SDCBP,SEC14L1,SELENBP1,SLC30A1,SLC4A1,TAL1,USP15
HALLMARK_UV_RESPONSE_UP	2.8e-06	7.0e-06	2184	158	34	23467	ABCB1,ALAS1,ATF3,C4BPB,CA2,CCND3,CDO1,CREG1,CXCL2,CYP1A1,FOS,FOSB,GCH1,GGH,GRINA,HLA-F,HTR7,ICAM1,IL6,IL6ST,JUNB,LYN,MAOA,NAT1,NFKBIA,NR4A1,PRKACA,RASGRP1,RHOB,SLC6A12,SOD2,SULT1A1,TMBIM6,TST
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.7e-05	4.0e-05	2184	200	38	23467	ABAT,ABHD2,AR,ASB13,BCL2,BHLHE40,CD44,CISH,DLC1,DYNLT3,EGR3,ELOVL5,FHL2,FKBP5,FOS,GFRA1,IGFBP4,IL6ST,JAK2,KLF10,MAST4,MPPED2,NRIP1,PAPSS2,PGR,PODXL,RASGRP1,RHOBTB3,RPS6KA2,SEC14L2,SH3BP5,SLC1A1,SLC27A2,SYBU,TIPARP,TOB1,TPD52L1,TSKU
HALLMARK_PEROXISOME	2.3e-05	5.3e-05	2184	104	24	23467	ABCB1,ABCB4,ABCD2,ACSL1,ACSL5,ALB,ALDH1A1,ALDH9A1,CAT,EHHADH,ELOVL5,HAO2,HSD17B4,IDH1,ISOC1,LONP2,NR1I2,PEX13,RXRG,SCP2,SLC27A2,SOD2,STS,VPS4B
HALLMARK_MYOGENESIS	3.9e-05	8.5e-05	2184	200	37	23467	ACSL1,AEBP1,AGL,APLNR,BHLHE40,CASQ2,CD36,CDH13,CDKN1A,CNN3,COL15A1,COL4A2,COX7A1,DMD,FGF2,FHL1,GNAO1,HBEGF,IGF1,IGFBP7,ITGA7,KCNH1,LPIN1,LSP1,MAPRE3,MEF2A,MEF2C,MYH11,MYLK,NOS1,PC,PDE4DIP,PPP1R3C,SH3BGR,TAGLN,TPD52L1,VIPR1
HALLMARK_HYPOXIA	4.2e-04	8.7e-04	2184	200	34	23467	AKAP12,ALDOB,ATF3,BCL2,BHLHE40,CDKN1A,CITED2,CP,DCN,DDIT4,DUSP1,EGFR,ETS1,FBP1,FOS,GBE1,GLRX,GRHPR,IL6,KLHL24,LXN,NR3C1,PDK1,PGM1,PPARGC1A,PPP1R3C,RORA,SELENBP1,SRPX,TIPARP,TMEM45A,TNFAIP3,UGP2,ZFP36
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	1.4e-03	2.9e-03	2184	49	12	23467	CAT,GCLC,GLRX,GLRX2,IPCEF1,JUNB,LSP1,MBP,MGST1,MSRA,NDUFS2,SOD2
HALLMARK_ESTROGEN_RESPONSE_LATE	3.3e-03	6.1e-03	2184	200	31	23467	ABHD2,BCL2,CA2,CD44,CISH,CYP4F11,DCXR,DYNLT3,EGR3,ELOVL5,FKBP5,FOS,HOMER2,IGFBP4,IL6ST,JAK1,JAK2,LTF,MOCS2,NRIP1,PAPSS2,PGR,PTGER3,RPS6KA2,SERPINA3,SGK1,SLC27A2,TOB1,TPD52L1,TST,ZFP36
HALLMARK_P53_PATHWAY	3.3e-03	6.1e-03	2184	200	31	23467	ABAT,ATF3,CASP1,CCND3,CD81,CDH13,CDKN1A,DCXR,DDIT4,EI24,ERCC5,F2R,FAS,FOS,GADD45A,HBEGF,IER5,LRMP,MDM2,PHLDA3,PLK2,SAT1,SESN1,SLC35D1,STEAP3,TOB1,TP63,TPD52L1,TXNIP,ZBTB16,ZMAT3
HALLMARK_ANGIOGENESIS	1.6e-02	2.8e-02	2184	36	8	23467	FSTL1,ITGAV,KCNJ8,LUM,NRP1,PGLYRP1,SLCO2A1,THBD
HALLMARK_MTORC1_SIGNALING	1.9e-02	3.3e-02	2184	200	28	23467	ADIPOR2,BHLHE40,CDKN1A,CFP,CORO1A,CTH,DAPP1,DDIT4,EDEM1,ELOVL5,FAM129A,FGL2,GBE1,GCLC,GLRX,IDH1,IGFBP5,INSIG1,ITGB2,NAMPT,PDK1,PGM1,PIK3R3,QDPR,SHMT2,SLA,SRD5A1,TBK1
HALLMARK_APICAL_JUNCTION	3.2e-02	5.3e-02	2184	200	27	23467	ADRA1B,ARHGEF6,CADM3,CD274,CD34,CD86,EGFR,EVL,FBN1,GNAI1,HADH,ICAM1,INSIG1,ITGA9,LAMA3,LIMA1,MSN,NEXN,NFASC,NRXN2,PECAM1,PIK3R3,PTPRC,SYK,TNFRSF11B,VCL,VWF

5.16 BRCA

5.16.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	2984	200	153	23467	AK2,ASF1A,ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BRMS1L,BUB1B,CCNB2,CCNE1,CDC20,CDC25A,CDC25B,CDCA3,CDCA8,CDK1,CDK4,CDKN2A,CDKN2C,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DCLRE1B,DCTPP1,DEK,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,DSCC1,DUT,E2F8,EIF2S1,ESPL1,EXOSC8,EZH2,GINS1,GINS3,GINS4,H2AFX,H2AFZ,HELLS,HMGA1,HMGB2,HMGB3,HMMR,HNRNPD,IPO7,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LBR,LIG1,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MSH2,MTHFD2,MXD3,MYBL2,NASP,NCAPD2,NME1,NOLC1,NOP56,NUP107,NUP205,PA2G4,PAICS,PCNA,PHF5A,PLK1,PLK4,POLA2,POLD1,POLD2,POLD3,POLE,POP7,PPP1R8,PRDX4,PRIM2,PRKDC,PSIP1,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD21,RAD51AP1,RAD51C,RAN,RANBP1,RBBP7,RFC2,RFC3,RNASEH2A,RPA1,RPA3,RRM2,SLBP,SMC1A,SMC3,SMC4,SMC6,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,SYNCRIP,TACC3,TBRG4,TCF19,TFRC,TIMELESS,TIPIN,TK1,TMPO,TOP2A,TRA2B,TRIP13,TUBB,TUBG1,UBE2S,UBE2T,UNG,USP1,XPO1,XRCC6,ZW10
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	2984	200	143	23467	ABCE1,ACP1,AIMP2,AP3S1,APEX1,BUB3,C1QBP,CANX,CBX3,CCNA2,CCT2,CCT3,CCT4,CCT5,CCT7,CDC20,CDC45,CDK2,CDK4,CLNS1A,COX5A,CSTF2,DDX18,DDX21,DEK,DHX15,DUT,EIF2S1,EIF2S2,EIF3B,EIF3J,EIF4A1,EPRS,ERH,EXOSC7,G3BP1,GLO1,GNL3,GOT2,H2AFZ,HDAC2,HDGF,HNRNPA2B1,HNRNPD,HNRNPR,HPRT1,HSP90AB1,HSPD1,HSPE1,IARS,IFRD1,ILF2,KARS,KPNA2,KPNB1,LDHA,LSM2,LSM7,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,MRPL9,NCBP1,NCBP2,NDUFAB1,NHP2,NME1,NOLC1,NOP16,NOP56,NPM1,PA2G4,PABPC4,PCNA,PGK1,PHB,POLD2,POLE3,PPIA,PPM1G,PRDX4,PRPS2,PSMA1,PSMA2,PSMA4,PSMA6,PSMA7,PSMB2,PSMB3,PSMC4,PSMC6,PSMD1,PSMD14,PSMD3,PSMD7,PSMD8,PTGES3,PWP1,RAD23B,RAN,RANBP1,RFC4,RNPS1,RRM1,RRP9,RUVBL2,SERBP1,SET,SF3B3,SMARCC1,SNRPA,SNRPA1,SNRPB2,SNRPD1,SNRPD2,SNRPD3,SNRPG,SRM,SRPK1,SSB,SSBP1,SYNCRIP,TARDBP,TCP1,TFDP1,TRA2B,TXNL4A,TYMS,U2AF1,UBA2,UBE2L3,USP1,VBP1,VDAC1,VDAC3,XPO1,XPOT,XRCC6,YWHAE,YWHAQ
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	2984	200	125	23467	AMD1,AURKA,AURKB,BIRC5,BRCA2,BUB1,BUB3,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC25B,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN2C,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CHMP1A,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F1,E2F2,E2F3,ESPL1,EXO1,EZH2,FANCC,FBXO5,G3BP1,GINS2,H2AFX,H2AFZ,HIF1A,HIRA,HIST1H2BK,HMGA1,HMGB3,HMGN2,HMMR,HNRNPD,HOXC10,HSPA8,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,KPNB1,LBR,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MNAT1,MYBL2,NASP,NCL,NDC80,NEK2,NOLC1,NUP50,NUSAP1,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,PTTG3P,RACGAP1,RAD21,RAD23B,RAD54L,RBL1,RBM14,SAP30,SFPQ,SLC7A1,SLC7A5,SMARCC1,SMC1A,SMC2,SMC4,SNRPD1,SQLE,STIL,STMN1,SUV39H1,SYNCRIP,TACC3,TFDP1,TMPO,TOP1,TOP2A,TPX2,TRA2B,TRAIP,TROAP,TTK,UBE2C,UBE2S,UCK2,XPO1
HALLMARK_MTORC1_SIGNALING	0.0e+00	0.0e+00	2984	200	107	23467	ABCF2,ACLY,ACTR3,ALDOA,ARPC5L,ASNS,ATP2A2,ATP6V1D,AURKA,BUB1,CACYBP,CALR,CANX,CCNF,CCT6A,CDC25A,CYB5B,DDIT3,DHCR7,DHFR,EBP,EEF1E1,EIF2S2,ELOVL6,ENO1,EPRS,FADS1,FADS2,G6PD,GAPDH,GMPS,GOT1,GPI,GSK3B,HMBS,HMGCR,HMGCS1,HPRT1,HSP90B1,HSPA4,HSPA5,HSPA9,HSPD1,HSPE1,IDI1,IFRD1,IMMT,INSIG1,LDHA,MCM2,MCM4,ME1,MTHFD2,NUFIP1,NUP205,P4HA1,PDAP1,PDK1,PGK1,PHGDH,PITPNB,PLK1,PLOD2,PNO1,PNP,POLR3G,PPA1,PPIA,PRDX1,PSAT1,PSMA3,PSMA4,PSMB5,PSMC2,PSMC4,PSMC6,PSMD12,PSMD13,PSMD14,PSME3,PSMG1,PSPH,RAB1A,RPA1,RPN1,RRM2,RRP9,SCD,SHMT2,SLC1A5,SLC2A1,SLC37A4,SLC7A11,SLC7A5,SQLE,SRD5A1,STIP1,TFRC,TMEM97,TOMM40,TPI1,TRIB3,TUBG1,TXNRD1,UCHL5,UNG,WARS
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	2984	58	48	23467	AIMP2,BYSL,CBX3,CDK4,DCTPP1,DDX18,EXOSC5,FARSA,GNL3,HSPD1,HSPE1,IMP4,IPO4,LAS1L,MCM4,MCM5,MPHOSPH10,MRTO4,MYBBP1A,NDUFAF4,NIP7,NOC4L,NOLC1,NOP16,NOP2,NOP56,NPM1,PA2G4,PES1,PHB,PLK1,PLK4,PPAN,PPRC1,PRMT3,PUS1,RRP12,RRP9,SLC19A1,SRM,SUPV3L1,TBRG4,TCOF1,TFB2M,TMEM97,UNG,WDR43,WDR74
HALLMARK_OXIDATIVE_PHOSPHORYLATION	0.0e+00	0.0e+00	2984	200	80	23467	ACO2,AFG3L2,AIFM1,ALAS1,ATP6V0B,ATP6V1D,ATP6V1E1,ATP6V1F,BAX,COX10,COX17,COX5A,COX5B,COX6A1,COX6B1,COX7A2,COX7A2L,COX7B,CS,CYCS,DLAT,DLD,ETFA,FH,GOT2,GPI,GRPEL1,HCCS,HSD17B10,HSPA9,IDH2,IDH3A,IDH3B,IDH3G,IMMT,LDHA,LRPPRC,MDH2,MRPL11,MRPL15,MRPS11,MRPS12,MRPS15,MRPS22,MTX2,NDUFA1,NDUFA6,NDUFA7,NDUFA8,NDUFA9,NDUFAB1,NDUFB3,NDUFB6,NDUFS1,NDUFS3,OPA1,PDHA1,PDHX,PMPCA,POLR2F,POR,SDHB,SDHC,SLC25A11,SLC25A4,SLC25A5,SUPV3L1,TIMM10,TIMM17A,TIMM50,TIMM8B,TIMM9,TOMM22,UQCR10,UQCRC1,UQCRFS1,UQCRH,VDAC1,VDAC2,VDAC3
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	0.0e+00	0.0e+00	2984	113	51	23467	ALDH18A1,ASNS,ATF4,BANF1,CALR,CEBPB,CEBPG,CHAC1,CKS1B,DDX10,DKC1,EIF2S1,EIF4A1,EIF4A3,EIF4EBP1,EIF4G1,EXOSC1,EXOSC10,EXOSC2,EXOSC5,EXOSC9,GEMIN4,H2AFX,HSP90B1,HSPA5,HSPA9,HYOU1,IARS,KHSRP,LSM1,LSM4,MTHFD2,NHP2,NOLC1,NOP14,NOP56,NPM1,PAIP1,PDIA6,POP4,PSAT1,RRP9,SDAD1,SLC7A5,SPCS1,SRPRB,TARS,VEGFA,XPOT,YIF1A,YWHAZ
HALLMARK_GLYCOLYSIS	0.0e+00	0.0e+00	2984	200	67	23467	ABCB6,ALDH7A1,ALDOA,AURKA,B4GALT2,CDK1,CENPA,CLDN3,CLDN9,DEPDC1,DLD,DSC2,EFNA3,ENO1,ENO2,FKBP4,G6PD,GALE,GALK2,GNPDA1,GOT1,GOT2,HAX1,HMMR,HOMER1,HS2ST1,HSPA5,KIF20A,LCT,LDHA,LHX9,MDH2,ME1,ME2,MIOX,NANP,NASP,NSDHL,P4HA1,P4HA2,PDK3,PGAM1,PGK1,PLOD1,PLOD2,PMM2,POLR3K,PPFIA4,PPIA,PSMC4,RARS,RPE,RRAGD,SAP30,SDC1,SDHC,SLC16A3,SLC25A10,SLC25A13,SLC37A4,SOD1,SPAG4,STMN1,TALDO1,TPI1,TXN,VEGFA
HALLMARK_DNA_REPAIR	0.0e+00	0.0e+00	2984	150	51	23467	ADRM1,APRT,ARL6IP1,BCAP31,BOLA2,CETN2,CMPK2,COX17,CSTF3,DUT,ERCC3,FEN1,GTF2A2,GTF3C5,HPRT1,LIG1,NCBP2,NME1,PCNA,PNP,POLA1,POLA2,POLD1,POLD3,POLR1C,POLR2C,POLR2D,POLR2F,POLR2G,POLR2H,POLR2J,POLR2K,PRIM1,RAD51,RAE1,RBX1,RFC2,RFC3,RFC4,RFC5,RPA3,SAC3D1,SF3A3,SSRP1,STX3,TAF12,TMED2,TYMS,UMPS,UPF3B,ZWINT
HALLMARK_UV_RESPONSE_UP	0.0e+00	0.0e+00	2984	158	52	23467	ALAS1,ALDOA,AMD1,AP2S1,ASNS,ATP6V1F,BID,BSG,CASP3,CCK,CCNE1,CDC34,CDK2,CEBPG,CHKA,CHRNA5,CNP,COL2A1,CYB5B,DDX21,DNAJA1,DNAJB1,EIF2S3,ENO2,EPCAM,FEN1,FKBP4,GAL,GCH1,GGH,GRPEL1,H2AFX,LHX2,NKX2-5,ONECUT1,PARP2,PDAP1,POLE3,POLR2H,PPAT,PPIF,PRKCD,PSMC3,RFC4,RPN1,SIGMAR1,SLC25A4,SLC6A8,STIP1,TARS,TCHH,TFRC
HALLMARK_MITOTIC_SPINDLE	6.0e-07	2.6e-06	2984	199	51	23467	ANLN,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPF,CENPJ,CKAP5,DLGAP5,DYNC1H1,ECT2,ESPL1,FBXO5,GEMIN4,HDAC6,INCENP,KIF11,KIF15,KIF1B,KIF20B,KIF22,KIF2C,KIF4A,KNTC1,LMNB1,LRPPRC,MAPRE1,NDC80,NEK2,NET1,NUSAP1,PIF1,PLK1,PRC1,RACGAP1,RANBP9,SAC3D1,SASS6,SMC1A,SMC3,SMC4,TOP2A,TPX2,TTK,TUBD1,UXT,WASF1,YWHAE
HALLMARK_ADIPOGENESIS	3.7e-06	1.5e-05	2984	200	49	23467	ACLY,ACO2,AIFM1,AK2,ALDOA,ATL2,ATP1B3,CDKN2C,CHUK,COQ3,COQ9,COX6A1,COX7B,CS,DHCR7,DLAT,DLD,ELOVL6,ESRRA,GHITM,GRPEL1,IDH3A,IDH3G,IMMT,JAGN1,MCCC1,MDH2,ME1,MRPL15,MTCH2,NDUFAB1,NDUFS3,PLIN2,POR,PTCD3,RTN3,SDHB,SDHC,SLC19A1,SLC1A5,SLC25A1,SLC25A10,SOD1,TALDO1,TKT,UBQLN1,UQCR10,UQCRC1,YWHAG
HALLMARK_CHOLESTEROL_HOMEOSTASIS	8.4e-06	3.2e-05	2984	74	24	23467	ACAT2,ACTG1,ALDOC,CBS,CHKA,DHCR7,EBP,FADS2,FDFT1,FDPS,GLDC,HMGCR,HMGCS1,IDI1,LSS,MVD,MVK,NSDHL,PDK3,S100A11,SCD,SQLE,TMEM97,TRIB3
HALLMARK_SPERMATOGENESIS	5.9e-05	2.1e-04	2984	135	34	23467	ACRV1,AGFG1,ALOX15,ART3,AURKA,BUB1,CCNB2,CDK1,CDKN3,CHFR,CLPB,CNIH2,CSNK2A2,DBF4,DMRT1,EZH2,GSG1,IL12RB2,KIF2C,NAA11,NCAPH,NEK2,PARP2,PCSK1N,PGK2,PSMG1,RFC4,STRBP,TALDO1,TOPBP1,TSN,TTK,VDAC3,YBX2
HALLMARK_FATTY_ACID_METABOLISM	6.7e-04	2.2e-03	2984	158	35	23467	AADAT,ACAT2,ACO2,ACOT8,ADSL,ALDOA,APEX1,CCDC58,DLD,ENO2,FH,H2AFZ,HCCS,HMGCS1,HSD17B10,HSP90AA1,HSPH1,IDH3B,IDH3G,IDI1,IL4I1,LDHA,MDH2,ME1,METAP1,NCAPH2,NSDHL,NTHL1,OSTC,PDHA1,PRDX6,PTS,SDHC,SMS,TDO2
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	8.0e-04	2.5e-03	2984	49	15	23467	ABCC1,CDKN2D,G6PD,GCLM,GLRX2,HMOX2,NDUFA6,OXSR1,PRDX1,PRDX4,PRDX6,SOD1,SRXN1,TXN,TXNRD1
HALLMARK_PEROXISOME	1.1e-02	3.1e-02	2984	104	22	23467	ABCB9,ABCD1,ACOT8,CACNA1B,CDK7,ERCC3,FABP6,FADS1,FDPS,HSD11B2,IDH2,IDI1,MSH2,NUDT19,PEX13,PRDX1,SLC25A17,SLC25A19,SLC25A4,SMARCC1,SOD1,TOP2A
HALLMARK_HEME_METABOLISM	3.1e-02	8.5e-02	2984	200	35	23467	ABCB6,ASNS,BSG,CTSB,E2F2,EIF2AK1,GCLM,GLRX5,GMPS,H1F0,HBQ1,HDGF,HIST1H4C,HMBS,HTATIP2,KLF1,LAMP2,MARK3,MOSPD1,NARF,OSBP2,P4HA2,RAD23A,RBM38,RHCE,SLC2A1,SLC30A10,SLC6A8,SLC6A9,SLC7A11,TFRC,TMCC2,TOP1,XK,XPO7

5.16.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	7174	200	141	23467	ABI3BP,ACTA2,ADAM12,ANPEP,AREG,BASP1,BGN,CALD1,CD44,CD59,CDH11,CDH6,COL12A1,COL16A1,COL1A1,COL1A2,COL3A1,COL5A1,COL5A2,COL5A3,COL6A2,COL6A3,COL7A1,COL8A2,COMP,CXCL1,CXCL12,CXCL6,DAB2,DCN,DPYSL3,DST,ECM1,ECM2,EDIL3,EFEMP2,ELN,EMP3,FAP,FAS,FBLN1,FBLN2,FBLN5,FBN1,FERMT2,FGF2,FMOD,FOXC2,FSTL1,FSTL3,FUCA1,FZD8,GADD45A,GADD45B,GAS1,GEM,GJA1,GLIPR1,GPC1,HTRA1,IGFBP3,IGFBP4,IL15,IL6,ITGA2,ITGAV,ITGB3,ITGB5,JUN,LAMA1,LAMA2,LAMA3,LAMC1,LAMC2,LOXL1,LRP1,LRRC15,LUM,MAGEE1,MATN2,MATN3,MFAP5,MGP,MMP2,MMP3,MSX1,MXRA5,MYL9,MYLK,NID2,NNMT,NOTCH2,NTM,OXTR,PCOLCE,PCOLCE2,PDGFRB,PDLIM4,PMEPA1,PMP22,POSTN,PRRX1,PTHLH,PTX3,QSOX1,RGS4,RHOB,SCG2,SDC4,SERPINE1,SERPINE2,SFRP1,SFRP4,SGCB,SGCD,SGCG,SLIT2,SLIT3,SNAI2,SPARC,SPOCK1,TAGLN,TFPI2,TGFB1,TGFBR3,TGM2,THBS2,THY1,TIMP1,TIMP3,TNC,TNFAIP3,TNFRSF11B,TPM1,TPM2,VCAM1,VCAN,VEGFC,VIM,WIPF1,WNT5A
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	7174	200	128	23467	ABCA1,AREG,ATF3,B4GALT1,BCL3,BCL6,BHLHE40,BIRC3,BMP2,BTG1,BTG2,CCL2,CCL5,CCND1,CCNL1,CCRL2,CD44,CD69,CD83,CDKN1A,CEBPD,CLCF1,CSF1,CXCL1,CXCL2,CXCL6,DENND5A,DNAJB4,DUSP1,DUSP4,EDN1,EGR1,EGR2,EGR3,ETS2,F2RL1,F3,FOS,FOSB,FOSL2,FUT4,G0S2,GADD45A,GADD45B,GEM,GFPT2,GPR183,HBEGF,HES1,ICAM1,IER2,IER3,IER5,IFNGR2,IL12B,IL15RA,IL18,IL1B,IL6,IL6ST,IL7R,IRF1,IRS2,JAG1,JUN,JUNB,KLF10,KLF2,KLF4,KLF6,KLF9,LAMB3,LIF,MAP3K8,MCL1,MSC,NFAT5,NFE2L2,NFKB1,NFKB2,NFKBIA,NFKBIE,NINJ1,NR4A1,NR4A2,NR4A3,PDE4B,PDLIM5,PFKFB3,PHLDA1,PLEK,PLK2,PMEPA1,PNRC1,PPP1R15A,PTGER4,PTGS2,PTPRE,PTX3,RCAN1,REL,RELA,RELB,RHOB,SDC4,SERPINB8,SERPINE1,SGK1,SIK1,SLC16A6,SLC2A3,SMAD3,SOCS3,STAT5A,TANK,TIPARP,TLR2,TNC,TNFAIP3,TNFAIP6,TNFAIP8,TNIP1,TRAF1,TRIB1,TRIP10,TSC22D1,ZC3H12A,ZFP36
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	7174	200	121	23467	ABCA1,ACVR1B,ACVR2A,AHR,APLNR,AXL,BEST1,BST2,BTG2,C3AR1,CALCRL,CCL17,CCL2,CCL22,CCL24,CCL5,CCR7,CCRL2,CD14,CD40,CD48,CD69,CD82,CDKN1A,CMKLR1,CSF1,CSF3,CX3CL1,CXCL6,CXCR6,CYBB,EBI3,EDN1,EMP3,F3,FPR1,GABBR1,GNA15,GP1BA,GPC3,GPR132,GPR183,HAS2,HBEGF,HPN,HRH1,ICAM1,ICAM4,IFNAR1,IFNGR2,IL10RA,IL12B,IL15,IL15RA,IL18,IL18R1,IL18RAP,IL1B,IL1R1,IL2RB,IL4R,IL6,IL7R,IRAK2,IRF1,ITGB3,ITGB8,KCNA3,KCNJ2,KLF6,LCK,LCP2,LIF,LPAR1,LTA,MET,NDP,NFKB1,NFKBIA,NLRP3,NMUR1,NPFFR2,OSMR,P2RX4,P2RX7,P2RY2,PCDH7,PDE4B,PDPN,PIK3R5,PTAFR,PTGER2,PTGER4,PTGIR,PTPRE,RELA,RGS1,RNF144B,SCARF1,SCN1B,SELE,SELL,SERPINE1,SLAMF1,SLC1A2,SLC31A2,SLC4A4,SLC7A2,SRI,STAB1,TACR1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFAIP6,TNFRSF1B,TNFSF10,TPBG,VIP
HALLMARK_ESTROGEN_RESPONSE_EARLY	0.0e+00	0.0e+00	7174	200	119	23467	ABAT,ABCA3,ABHD2,ABLIM1,ADCY1,ADCY9,ADD3,AFF1,AMFR,ANXA9,AR,AREG,ASB13,B4GALT1,BAG1,BCL11B,BCL2,BHLHE40,CA12,CALCR,CANT1,CBFA2T3,CCND1,CD44,CELSR1,CELSR2,CHPT1,CISH,CXCL12,CYP26B1,DLC1,EGR3,ELF1,ELOVL2,ELOVL5,FAM102A,FHL2,FOS,FRK,GAB2,GFRA1,GJA1,GLA,GREB1,HES1,IGF1R,IGFBP4,IL6ST,JAK2,KCNK15,KDM4B,KLF10,KLF4,KRT15,KRT18,LRIG1,MAPT,MAST4,MED13L,MLPH,MPPED2,MREG,MUC1,MYB,MYOF,NADSYN1,NAV2,NBL1,NCOR2,NPY1R,NRIP1,OLFM1,OLFML3,OVOL2,P2RY2,PDZK1,PEX11A,PGR,PMAIP1,PODXL,PRSS23,RAB17,RAB31,RARA,RBBP8,REEP1,RET,RHOD,RPS6KA2,SCNN1A,SEC14L2,SEMA3B,SH3BP5,SIAH2,SLC19A2,SLC1A1,SLC1A4,SLC22A5,SLC27A2,SLC39A6,SLC7A2,STC2,SVIL,SYBU,TFF1,TFF3,TGM2,THSD4,TIPARP,TJP3,TMEM164,TMPRSS3,TOB1,TPBG,TTC39A,UGCG,WFS1,XBP1,ZNF185
HALLMARK_MYOGENESIS	0.0e+00	0.0e+00	7174	200	117	23467	ABLIM1,ACHE,ADAM12,ADCY9,AEBP1,AGRN,ANKRD2,APLNR,APOD,BAG1,BHLHE40,BIN1,CACNG1,CASQ1,CASQ2,CD36,CDH13,CDKN1A,CFD,CKMT2,CLU,CNN3,COL15A1,COL1A1,COL3A1,COL6A2,COL6A3,COX7A1,CRAT,CTF1,DES,DMD,DMPK,EIF4A2,ERBB3,FGF2,FHL1,FKBP1B,FLII,FOXO4,FST,FXYD1,GAA,GADD45B,GJA5,GNAO1,GPX3,GSN,HBEGF,HRC,HSPB2,IGF1,IGFBP3,IGFBP7,ITGA7,ITGB4,ITGB5,KCNH1,KIFC3,LAMA2,LDB3,LSP1,MEF2A,MEF2C,MEF2D,MRAS,MYH1,MYH11,MYH2,MYH3,MYH4,MYH8,MYL2,MYL3,MYL7,MYLK,MYO1C,MYOM1,MYOM2,MYOZ1,NAV2,NCAM1,PDE4DIP,PDLIM7,PKIA,PLXNB2,PPP1R3C,PSEN2,PTGIS,PYGM,RB1,REEP1,RIT1,SCHIP1,SGCA,SGCD,SGCG,SH2B1,SH3BGR,SOD3,SORBS1,SORBS3,SPARC,SPDEF,SPTAN1,SSPN,ST5,STC2,SVIL,SYNGR2,TAGLN,TGFB1,TNNI2,TNNT3,TPM2,VIPR1,WWTR1
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	7174	200	116	23467	ABCB1,ACE,AKAP12,ALDH1A2,ALDH1A3,ANKH,ANO1,APOD,ARG1,BIRC3,BMP2,C3AR1,CA2,CAB39L,CBR4,CCND2,CD37,CDADC1,CFB,CFH,CIDEA,CLEC4A,CMKLR1,CPE,CROT,DNMBP,DOCK2,DUSP6,EMP1,ENG,EPB41L3,ETS1,ETV1,ETV5,EVI5,F13A1,F2RL1,FBXO4,FGF9,FLT4,FUCA1,G0S2,GADD45G,GFPT2,GLRX,GNG11,GYPC,HBEGF,HSD11B1,IGF2,IGFBP3,IKZF1,IL10RA,IL1B,IL2RG,IL33,IL7R,IRF8,ITGA2,ITGB2,ITGBL1,KIF5C,KLF4,LAPTM5,LAT2,LCP1,LIF,LY96,MAFB,MALL,MAP3K1,MAP4K1,MAP7,MMP10,MTMR10,NAP1L2,NGF,NIN,NRP1,PECAM1,PIGR,PLAT,PLVAP,PPP1R15A,PRDM1,PRRX1,PTGS2,PTPRR,RABGAP1L,RBP4,RELN,SATB1,SCG5,SCN1B,SDCCAG8,SEMA3B,SERPINA3,SPARCL1,SPON1,SPRY2,ST6GAL1,TFPI,TLR8,TMEM100,TNFAIP3,TNFRSF1B,TPH1,TRAF1,TRIB1,TRIB2,TSPAN1,TSPAN13,TSPAN7,VWA5A,WNT7A,ZNF277
HALLMARK_UV_RESPONSE_DN	0.0e+00	0.0e+00	7174	144	90	23467	ACVR2A,ADD3,AKT3,AMPH,ANXA4,APBB2,ATP2B4,ATRN,ATXN1,BCKDHB,BHLHE40,CACNA1A,CAV1,CDKN1B,CDON,CELF2,CITED2,COL1A1,COL1A2,COL3A1,COL5A2,DAB2,DBP,DDAH1,DLC1,DUSP1,EFEMP1,ERBB2,F3,FBLN5,FHL2,FYN,GJA1,GRK5,HAS2,ICA1,ID1,IGF1R,INPP4B,IRS1,ITGB3,KCNMA1,KIT,LAMC1,LPAR1,MAGI2,MAP1B,MAP2K5,MET,MGLL,MIOS,MMP16,MT1E,NFKB1,NOTCH2,NR3C1,NRP1,PDGFRB,PDLIM5,PHF3,PIAS3,PIK3CD,PIK3R3,PMP22,PPARG,PRDM2,PRKAR2B,PRKCA,PRKCE,PTEN,PTGFR,PTPRM,RBPMS,RGS4,RND3,RUNX1,RXRA,SCHIP1,SERPINE1,SLC22A18,SMAD3,SNAI2,SPOP,SRI,SYNE1,TFPI,TGFBR2,TGFBR3,TJP1,WDR37
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	7174	200	112	23467	ACHE,ACVR2A,APBB1,BCL10,BCL3,CCL19,CCL2,CCL22,CCL5,CCND2,CCND3,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD74,CD79A,CD8A,CD8B,CD96,CFP,CRTAM,CSF1,CXCR3,DYRK3,EGFR,ELANE,ETS1,F2R,FAS,FASLG,FGR,GBP2,GPR65,GZMA,HCLS1,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICAM1,IFNAR2,IFNGR1,IFNGR2,IGSF6,IKBKB,IL12B,IL12RB1,IL15,IL16,IL18,IL18RAP,IL1B,IL2,IL27RA,IL2RB,IL2RG,IL4R,IL6,IL7,IRF4,IRF8,ITGAL,ITGB2,ITK,JAK2,KRT1,LCK,LCP2,LIF,LTB,LY75,LY86,MAP4K1,NCF4,NLRP3,PRF1,PRKCB,PTPN6,PTPRC,RPS3A,RPS9,SIT1,SOCS5,SPI1,SRGN,ST8SIA4,STAB1,STAT4,TAPBP,TGFB1,TGFB2,THY1,TIMP1,TLR1,TLR2,TLR3,TLR6,TRAT1,WAS,ZAP70
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	7174	200	112	23467	ABCB1,AGER,AHNAK,AHR,AKAP2,ALCAM,AMACR,ANXA4,ARL4A,BATF,BATF3,BCL2,BCL2L1,BHLHE40,BMP2,BMPR2,CA2,CAPN3,CCND2,CCND3,CCR4,CD44,CD48,CD79B,CD81,CD83,CDC42SE2,CDKN1C,CISH,COL6A1,CSF1,CST7,DENND5A,ECM1,EMP1,ENPP1,EOMES,F2RL2,FAH,FGL2,FLT3LG,GABARAPL1,GADD45B,GATA1,GPR65,HIPK2,IFNGR1,IGF1R,IKZF2,IKZF4,IL10RA,IL18R1,IL1RL1,IL2RB,IL4R,IRF4,IRF8,ITGA6,ITGAV,ITIH5,KLF6,LIF,LRIG1,LRRC8C,LTB,MAP3K8,MAP6,MAPKAPK2,MUC1,MYO1C,NFKBIZ,NRP1,P2RX4,PENK,PHLDA1,PLAGL1,PLEC,PRKCH,PTGER2,PTH1R,RABGAP1L,RHOB,RHOH,RNH1,RORA,S100A1,SCN9A,SELL,SELP,SERPINB6,SERPINC1,SH3BGRL2,SHE,SLC2A3,SMPDL3A,SNX9,SOCS2,SPRED2,SPRY4,SWAP70,SYNGR2,SYT11,TGM2,TLR7,TNFRSF1B,TNFRSF8,TNFSF10,TNFSF11,TRAF1,TWSG1,WLS,XBP1
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	7174	161	93	23467	ADD1,ANKH,ANXA1,ATF3,AVPR1A,BCL10,BCL2L1,BCL2L11,BCL2L2,BGN,BIRC3,BMP2,BNIP3L,BTG2,CASP1,CASP4,CASP6,CASP8,CASP9,CAV1,CCND1,CCND2,CD14,CD2,CD44,CD69,CDKN1A,CDKN1B,CLU,CREBBP,CTH,CYLD,DAP,DCN,DPYD,EGR3,EMP1,ERBB2,ERBB3,F2R,FAS,FASLG,FDXR,FEZ1,GADD45A,GADD45B,GNA15,GPX1,GPX3,GSN,HGF,IER3,IFNGR1,IGFBP6,IL18,IL1B,IL6,IRF1,JUN,KRT18,LEF1,LGALS3,LMNA,LUM,MADD,MCL1,MMP2,NEDD9,NEFH,PAK1,PDCD4,PDGFRB,PEA15,PLAT,PLCB2,PMAIP1,PRF1,PSEN2,RARA,RELA,RETSAT,RHOB,RHOT2,RNASEL,SATB1,SPTAN1,TGFB2,TGFBR3,TIMP1,TIMP2,TIMP3,TNFSF10,TXNIP
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	7174	200	101	23467	ACTG2,ADAM23,ADAMTS5,AKT3,AMIGO1,AMIGO2,ARHGEF6,B4GALT1,CADM2,CADM3,CD209,CD34,CDH11,CDH6,CDSN,CERCAM,CLDN11,CLDN15,CLDN18,CLDN19,CLDN5,CLDN8,CNN2,CNTN1,COL16A1,COL17A1,CRAT,CTNND1,CX3CL1,DSC1,DSC3,EGFR,EPB41L2,EVL,FBN1,FLNC,GAMT,GNAI1,GNAI2,GTF2F1,ICAM1,ICAM2,ICAM4,IRS1,ITGA10,ITGA2,ITGA3,ITGA9,ITGB4,JAM3,LAMA3,LAMB3,LAMC2,LAYN,LDLRAP1,LIMA1,MADCAM1,MAPK11,MMP2,MPZL1,MYL9,NEGR1,NEXN,NLGN3,NRXN2,PARD6G,PARVA,PBX2,PCDH1,PECAM1,PIK3R3,PKD1,PTEN,PTPRC,RAC2,RASA1,RRAS,SDC3,SGCE,SHC1,SKAP2,SLIT2,SORBS3,STX4,SYK,TAOK2,THY1,TJP1,TMEM8B,TNFRSF11B,TRAF1,TRO,TSC1,TSPAN4,VCAM1,VCAN,VCL,VWF,WASL,WNK4,ZYX
HALLMARK_ESTROGEN_RESPONSE_LATE	0.0e+00	0.0e+00	7174	200	100	23467	ABCA3,ABHD2,ACOX2,ADD3,AFF1,AGR2,ALDH3A2,AMFR,ANXA9,AREG,ATP2B4,BAG1,BATF,BCL2,CA12,CA2,CACNA2D2,CALCR,CAV1,CCND1,CD44,CELSR2,CHPT1,CHST8,CISH,COX6C,CPE,CXCL12,CXCL14,CYP26B1,CYP4F11,DLG5,DNAJC12,EGR3,ELOVL5,FAM102A,FOS,FRK,GLA,HMGCS2,IGFBP4,IGSF1,IL6ST,JAK1,JAK2,KLF4,KLK11,LAMC2,LTF,MAPT,MYB,MYOF,NBL1,NCOR2,NPY1R,NRIP1,OLFM1,OVOL2,PDCD4,PDZK1,PGR,PLXNB1,PRKAR2B,PRLR,PRSS23,PTGER3,PTPN6,RAB31,RABEP1,RBBP8,RET,RPS6KA2,SCNN1A,SCUBE2,SEMA3B,SERPINA1,SERPINA3,SERPINA5,SGK1,SIAH2,SLC1A4,SLC22A5,SLC27A2,ST6GALNAC2,TFF1,TFF3,TFPI2,TJP3,TMPRSS3,TOB1,TPBG,TPSAB1,TRIM29,TSPAN13,TSTA3,UGDH,UNC13B,WFS1,XBP1,ZFP36
HALLMARK_COAGULATION	0.0e+00	1.0e-07	7174	138	74	23467	A2M,ACOX2,ANG,ANXA1,C1R,C1S,C3,CAPN2,CAPN5,CASP9,CFB,CFD,CFH,CFI,CLU,COMP,CRIP2,CSRP1,CTSH,CTSK,CTSO,DCT,DPP4,DUSP6,F10,F2RL2,F3,F8,FBN1,FYN,GNB2,GNG12,GP1BA,GSN,HMGCS2,HPN,HTRA1,ISCU,ITGA2,ITGB3,ITIH1,KLKB1,LEFTY2,LRP1,LTA4H,MASP2,MMP10,MMP2,MMP3,MST1,P2RY1,PECAM1,PEF1,PLAT,PLEK,PROC,PROS1,PRSS23,RAPGEF3,RGN,S100A1,S100A13,SERPINA1,SERPINC1,SERPINE1,SERPING1,SPARC,TF,TFPI2,THBD,TIMP1,TIMP3,TMPRSS6,VWF
HALLMARK_P53_PATHWAY	1.0e-07	3.0e-07	7174	200	97	23467	ABAT,ABHD4,ACVR1B,ANKRA2,ATF3,BLCAP,BMP2,BTG1,BTG2,CASP1,CCND2,CCND3,CCNG1,CD81,CD82,CDH13,CDKN1A,CDKN2AIP,CDKN2B,CEBPA,CGRRF1,CLCA2,CTSF,CYFIP2,DDB2,DEF6,DGKA,EPHA2,ERCC5,F2R,FAS,FDXR,FOS,FUCA1,GADD45A,GLS2,HBEGF,HEXIM1,IER3,IER5,IP6K2,ISCU,ITGB4,JAG2,JUN,KIF13B,KLF4,KRT17,LIF,LRMP,MDM2,MKNK2,MXD4,NINJ1,PDGFA,PHLDA3,PLK2,PLK3,PLXNB2,POLH,PPP1R15A,PRKAB1,PRMT2,PROCR,PTPRE,RALGDS,RB1,RCHY1,RETSAT,RPS12,RPS27L,RRAD,RXRA,SERPINB5,SERTAD3,SESN1,SLC19A2,SLC35D1,SP1,STOM,TCN2,TGFA,TGFB1,TM4SF1,TM7SF3,TOB1,TP63,TSC22D1,TSPYL2,TXNIP,VWA5A,WWP1,XPC,ZBTB16,ZFP36L1,ZMAT3,ZNF365
HALLMARK_XENOBIOTIC_METABOLISM	7.0e-07	2.4e-06	7174	200	94	23467	ABCC3,ABCD2,ACOX1,ACOX2,ACOX3,ACSM1,ADH1C,AKR1C2,AKR1C3,ALDH2,ALDH3A1,ALDH9A1,AOX1,ARG1,ASL,ATOH8,BCAR1,CA2,CASP6,CAT,CD36,CDA,CDO1,CES1,CFB,CNDP2,CROT,CRP,CSAD,CYB5A,CYFIP2,CYP26A1,CYP4F2,DDAH2,DHRS1,DHRS7,ELOVL5,ENTPD5,EPHA2,ESR1,ETFDH,ETS2,F10,FAH,FAS,FBLN1,FBP1,FMO1,GABARAPL1,GAD1,GCKR,GCLC,GCNT2,GNMT,GSS,GSTM4,HACL1,HSD11B1,IGF1,IGFBP1,IGFBP4,IL1R1,IRF8,ITIH1,ITIH4,LCAT,LPIN2,MAN1A1,MAOA,NDRG2,NINJ1,NMT1,PDK4,PDLIM5,PINK1,PROS1,PTGDS,PTGR1,RBP4,RETSAT,SERPINE1,SERTAD1,SLC12A4,SLC35D1,SLC46A3,SLC6A6,TAT,TGFB2,TMBIM6,TNFRSF1A,TPST1,UGDH,VNN1,XDH
HALLMARK_BILE_ACID_METABOLISM	2.2e-06	6.9e-06	7174	112	58	23467	ABCA1,ABCA2,ABCA3,ABCA5,ABCA6,ABCA8,ABCA9,ABCD2,ABCD3,ACSL5,ALDH1A1,ALDH8A1,ALDH9A1,AMACR,AR,ATXN1,BBOX1,BCAR3,BMP6,CAT,CH25H,CROT,CYP39A1,CYP46A1,CYP7A1,CYP7B1,CYP8B1,DIO2,EFHC1,EPHX2,FDXR,GNMT,GSTK1,HACL1,HSD17B11,HSD17B4,HSD3B7,LCK,LIPE,NEDD4,NR3C2,NUDT12,OPTN,PEX11A,PEX11G,PEX12,PEX19,PEX7,PNPLA8,RETSAT,RXRA,RXRG,SCP2,SLC22A18,SLC23A2,SLC27A2,SLCO1A2,SOAT2
HALLMARK_COMPLEMENT	3.0e-06	8.8e-06	7174	200	92	23467	AKAP10,ANG,APOBEC3F,APOBEC3G,BRPF3,C1R,C1S,C3,CA2,CASP1,CASP10,CASP4,CASP9,CCL5,CD36,CD40LG,CD46,CD59,CDA,CDH13,CFB,CFH,CLU,CR1,CR2,CSRP1,CTSH,CTSO,CXCL1,DOCK10,DOCK4,DOCK9,DPP4,DUSP6,F10,F3,F7,F8,FCN1,FYN,GATA3,GNAI2,GNB2,GNG2,GNGT2,GP1BA,GZMA,GZMK,HPCAL4,IL6,IRF1,IRF2,ITGAM,ITIH1,JAK2,KCNIP2,KCNIP3,KLK1,KLKB1,L3MBTL4,LCK,LCP2,LGALS3,LIPA,LRP1,LTA4H,LTF,NOTCH4,PCLO,PIK3CG,PIK3R5,PLAT,PLEK,PPP2CB,PRCP,PRSS36,S100A13,SERPINA1,SERPINC1,SERPINE1,SERPING1,SH2B3,SPOCK2,STX4,TFPI2,TIMP1,TIMP2,TMPRSS6,TNFAIP3,WAS,ZEB1,ZFPM2
HALLMARK_HYPOXIA	7.2e-05	2.0e-04	7174	200	87	23467	AKAP12,ALDOB,AMPD3,ATF3,BCAN,BCL2,BGN,BHLHE40,BNIP3L,BTG1,CA12,CASP6,CAV1,CCNG2,CDKN1A,CDKN1B,CDKN1C,CITED2,COL5A1,DCN,DPYSL4,DUSP1,EDN2,EGFR,ETS1,F3,FBP1,FOS,FOSL2,GAA,GCK,GCNT2,GLRX,GPC1,GPC3,HAS1,HK1,HS3ST1,IDS,IER3,IGFBP1,IGFBP3,IL6,IRS2,JUN,KLF6,LXN,MAP3K1,MT1E,NAGK,NDST1,NDST2,NEDD4L,NR3C1,PAM,PCK1,PFKFB3,PGF,PHKG1,PKLR,PLAC8,PNRC1,PPARGC1A,PPP1R15A,PPP1R3C,PRKCA,PYGM,RORA,SDC3,SDC4,SELENBP1,SERPINE1,SIAH2,SLC2A3,SLC6A6,SRPX,STBD1,STC2,TGFB3,TGM2,TIPARP,TKTL1,TNFAIP3,TPBG,TPST2,WSB1,ZFP36
HALLMARK_IL6_JAK_STAT3_SIGNALING	7.5e-05	2.0e-04	7174	87	44	23467	A2M,ACVR1B,ACVRL1,CD14,CD36,CD44,CSF1,CSF2RB,CXCL1,EBI3,FAS,IFNAR1,IFNGR1,IFNGR2,IL12RB1,IL13RA1,IL15RA,IL18R1,IL1B,IL1R1,IL2RG,IL4R,IL6,IL6ST,IL7,IRF1,ITGA4,ITGB3,JUN,LEPR,LTB,MAP3K8,OSMR,PDGFC,PIK3R5,PLA2G2A,SOCS3,STAM2,STAT3,TGFB1,TLR2,TNFRSF1A,TNFRSF1B,TYK2
HALLMARK_APICAL_SURFACE	8.3e-05	2.1e-04	7174	44	26	23467	AFAP1L2,AKAP7,ATP8B1,B4GALT1,CD160,CROCC,CX3CL1,GAS1,GATA3,GHRL,GSTM3,IL2RB,IL2RG,LYPD3,MAL,MDGA1,NTNG1,PKHD1,RTN4RL1,SCUBE1,SLC22A12,SLC2A4,SRPX,SULF2,THY1,TMEM8B
HALLMARK_KRAS_SIGNALING_DN	2.3e-04	5.4e-04	7174	200	85	23467	ABCB11,ARPP21,BMPR1B,BTG2,C5,CACNA1F,CACNG1,CAPN9,CCDC106,CD207,CD40LG,CELSR2,CLDN8,CLSTN3,COPZ2,CPB1,CPEB3,CYP39A1,DLK2,EDAR,EDN1,EDN2,EGF,EPHA5,FGF16,FGGY,GAMT,GP1BA,GP2,GPRC5C,HNF1A,IDUA,IL12B,INSL5,ITIH3,KCND1,KCNMB1,KLK7,KRT1,KRT15,KRT5,LFNG,LGALS7,LYPD3,MAST3,MTHFR,MYO15A,MYOT,NPHS1,NR4A2,NRIP2,NTF3,NUDT11,OXT,P2RX6,P2RY4,PAX3,PDCD1,PDE6B,PDK2,PNMT,PRODH,PTGFR,PTPRJ,RGS11,RYR2,SGK1,SHOX2,SIDT1,SLC12A3,SLC16A7,SLC29A3,SLC6A3,SOX10,SPHK2,SYNPO,TAS2R4,TCF7L1,TCL1A,TFAP2B,TG,TGFB2,THRB,WNT16,ZBTB16
HALLMARK_INTERFERON_GAMMA_RESPONSE	3.9e-04	8.8e-04	7174	200	84	23467	ARID5B,ARL4A,BANK1,BST2,BTG1,C1R,C1S,CASP1,CASP4,CASP8,CCL2,CCL5,CD40,CD69,CD74,CDKN1A,CFB,CFH,CIITA,CMKLR1,CSF2RB,DHX58,EIF4E3,FAS,FGL2,FPR1,GPR18,GZMA,HLA-DMA,HLA-DQA1,HLA-DRB1,ICAM1,IFI35,IFITM2,IFNAR2,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL6,IL7,IRF1,IRF2,IRF4,IRF8,JAK2,KLRK1,LATS2,LCP2,MVP,NFKB1,NFKBIA,NOD1,P2RY14,PDE4B,PELI1,PML,PTGS2,PTPN6,RBCK1,RIPK1,RNF31,SAMD9L,SELP,SERPING1,SOCS3,SRI,SSPN,ST3GAL5,ST8SIA4,STAT3,STAT4,TAPBP,TNFAIP3,TNFAIP6,TNFSF10,TRIM14,TXNIP,VAMP5,VCAM1,XCL1,ZNFX1
HALLMARK_ANGIOGENESIS	5.1e-04	1.1e-03	7174	36	21	23467	CCND2,COL3A1,COL5A2,CXCL6,FGFR1,FSTL1,ITGAV,JAG1,JAG2,KCNJ8,LPL,LUM,MSX1,NRP1,PDGFA,POSTN,SERPINA5,SLCO2A1,THBD,TIMP1,VCAN
HALLMARK_ANDROGEN_RESPONSE	8.2e-04	1.7e-03	7174	100	46	23467	ABHD2,ADAMTS1,AKAP12,ALDH1A3,ANKH,APPBP2,ARID5B,AZGP1,B4GALT1,BMPR1B,CAMKK2,CCND1,CCND3,CDC14B,DNAJB9,ELL2,ELOVL5,GPD1L,HERC3,HPGD,INPP4B,IQGAP2,ITGAV,KLK2,KLK3,LIFR,MAF,MAK,MAP7,MERTK,NCOA4,NKX3-1,PDLIM5,PMEPA1,PTK2B,RAB4A,RPS6KA3,SGK1,SPCS3,SPDEF,SRF,STEAP4,STK39,TNFAIP8,TSC22D1,VAPA
HALLMARK_TGF_BETA_SIGNALING	8.8e-04	1.8e-03	7174	54	28	23467	ACVR1,BCAR3,BMP2,BMPR2,CDK9,CDKN1C,ENG,HIPK2,ID1,ID3,IFNGR2,JUNB,KLF10,LEFTY2,LTBP2,NCOR2,NOG,PMEPA1,PPP1R15A,RAB31,SERPINE1,SKI,SMAD1,SMAD3,SPTBN1,TGFB1,TJP1,WWTR1
HALLMARK_ADIPOGENESIS	1.7e-03	3.4e-03	7174	200	81	23467	ABCA1,ABCB8,ACADL,ACADM,ACADS,ACOX1,ADCY6,ADIPOQ,AGPAT3,ALDH2,ARL4A,BAZ2A,BCKDHA,BCL6,C3,CAT,CCNG2,CD151,CD302,CD36,CIDEA,CMBL,COL15A1,CPT2,CRAT,CYP4B1,DECR1,DGAT1,DHRS7,DNAJB9,DRAM2,ELMOD3,ENPP2,EPHX2,ESYT1,FABP4,FAH,FZD4,GADD45A,GPAM,GPX3,IFNGR1,ITGA7,ITIH5,LAMA4,LEP,LIFR,LIPE,LPCAT3,LPL,LTC4S,MGLL,MRAP,MYLK,NMT1,OMD,PDCD4,PFKFB3,PHLDB1,PPARG,PPP1R15B,PQLC3,PTGER3,QDPR,RAB34,REEP6,RETSAT,RNF11,RREB1,SCP2,SLC27A1,SORBS1,SPARCL1,SSPN,STAT5A,STOM,SULT1A1,TANK,TOB1,UCP2,VEGFB
HALLMARK_NOTCH_SIGNALING	2.2e-03	4.1e-03	7174	32	18	23467	ARRB1,CCND1,DLL1,DTX1,FZD1,FZD7,HES1,HEYL,JAG1,LFNG,MAML2,NOTCH2,NOTCH3,PRKCA,PSEN2,TCF7L2,WNT2,WNT5A
HALLMARK_WNT_BETA_CATENIN_SIGNALING	6.5e-03	1.2e-02	7174	42	21	23467	AXIN2,CCND2,DKK4,DLL1,FRAT1,FZD1,FZD8,GNAI1,JAG1,JAG2,LEF1,MAML1,NCOR2,NCSTN,NKD1,NOTCH4,NUMB,PSEN2,TCF7,WNT1,WNT5B
HALLMARK_FATTY_ACID_METABOLISM	7.9e-03	1.4e-02	7174	158	63	23467	ACAA1,ACADL,ACADM,ACADS,ACOT2,ACOX1,ACSL4,ACSL5,ACSM3,ACSS1,ADH1C,ALAD,ALDH1A1,ALDH3A1,ALDH3A2,ALDH9A1,AOC3,AQP7,AUH,BCKDHB,BLVRA,BMPR1B,CA2,CA4,CD1D,CD36,CIDEA,CPT2,CRAT,CRYZ,CYP4A11,CYP4A22,DECR1,EHHADH,ELOVL5,ETFDH,FMO1,G0S2,GABARAPL1,GLUL,GPD1,GSTZ1,HADHB,HAO2,HMGCL,HMGCS2,HPGD,HSD17B11,HSD17B4,INMT,LTC4S,MAOA,MCEE,MGLL,PTPRG,REEP6,RETSAT,SERINC1,SLC22A5,UGDH,UROD,VNN1,XIST
HALLMARK_HEME_METABOLISM	1.5e-02	2.4e-02	7174	200	76	23467	ABCG2,ADD1,ALAD,ALDH1L1,ALDH6A1,ARHGEF12,ARL2BP,BACH1,BCAM,BLVRA,BMP2K,BNIP3L,BTG2,BTRC,C3,CA2,CAST,CAT,CCDC28A,CCND3,CIR1,CLIC2,DCAF11,ELL2,EPB42,EPOR,ERMAP,EZH1,FBXO34,FBXO9,FOXJ2,GATA1,GCLC,GDE1,GYPC,GYPE,HBB,ICAM4,KAT2B,KHNYN,KLF3,LMO2,LPIN2,LRP10,MARCH2,MARCH8,MPP1,NCOA4,NFE2L1,NR3C1,OPTN,PDZK1IP1,PICALM,PIGQ,PPOX,RANBP10,RBM5,SDCBP,SEC14L1,SELENBP1,SIDT2,SLC22A4,SLC30A1,SNCA,SPTB,TAL1,TMEM9B,TNRC6B,TNS1,TRAK2,TRIM58,TSPAN5,UCP2,UROD,VEZF1,YPEL5
HALLMARK_PEROXISOME	2.1e-02	3.4e-02	7174	104	42	23467	ABCB1,ABCB4,ABCC8,ABCD2,ABCD3,ACAA1,ACOX1,ACSL4,ACSL5,ALB,ALDH1A1,ALDH9A1,ATXN1,BCL10,CAT,CLN8,CRAT,DLG4,EHHADH,ELOVL5,EPHX2,ERCC1,ESR2,FIS1,GSTK1,HAO2,HMGCL,HSD17B11,HSD17B4,HSD3B7,MVP,PEX11A,PEX11B,PEX2,PEX5,RETSAT,RXRG,SCP2,SEMA3C,SLC23A2,SLC27A2,STS
HALLMARK_HEDGEHOG_SIGNALING	5.5e-02	8.6e-02	7174	36	16	23467	ACHE,AMOT,CELSR1,CRMP1,DPYSL2,ETS2,GLI1,LDB1,NRP1,PML,RASA1,RTN1,SCG2,THY1,TLE3,UNC5C

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

5.17 UCS

5.17.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.17.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.18 GBM

5.18.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	620	200	50	23467	AURKA,AURKB,BRCA2,BUB1,CASP8AP2,CCNA2,CCNF,CDC25A,CDC6,CENPE,CHEK1,DKC1,ESPL1,EXO1,FANCC,FBXO5,FOXN3,ILF3,INCENP,KIF11,KIF15,KIF20B,KIF2C,KIF4A,LIG3,MCM3,MCM6,MKI67,NUP50,NUP98,ODF2,PDS5B,PLK4,POLE,POLQ,PRIM2,RAD23B,RAD54L,RBL1,SFPQ,SMARCC1,SMC1A,SMC2,SMC4,STIL,TMPO,TOP1,TOP2A,TPX2,TROAP
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	620	200	46	23467	ASF1B,ATAD2,AURKA,AURKB,BRCA2,BUB1B,CDC25A,CENPE,CHEK1,CHEK2,CSE1L,DEK,DEPDC1,DIAPH3,DLGAP5,DNMT1,ESPL1,HELLS,ILF3,KIF2C,KIF4A,LYAR,MCM3,MCM6,MKI67,MSH2,NCAPD2,NUDT21,NUP153,NUP205,PDS5B,PLK4,POLD1,POLD3,POLE,PRIM2,RFC3,SMC1A,SMC4,SMC6,SPAG5,TIMELESS,TMPO,TOP2A,TRIP13,ZW10
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	620	200	26	23467	CCNA2,CDK2,CSTF2,DDX21,DEK,DHX15,EIF3D,EPRS,FBL,GNL3,HDAC2,HNRNPA1,HSP90AB1,IARS,KARS,MCM6,NCBP1,PABPC1,PABPC4,RAD23B,RRM1,RSL1D1,SF3A1,SF3B3,SMARCC1,SRPK1
HALLMARK_MITOTIC_SPINDLE	0.0e+00	2.0e-07	620	199	22	23467	ALMS1,AURKA,BRCA2,BUB1,CENPE,CEP57,DLGAP5,ESPL1,FBXO5,GEMIN4,INCENP,KIF11,KIF15,KIF20B,KIF2C,KIF4A,KNTC1,SASS6,SMC1A,SMC4,TOP2A,TPX2
HALLMARK_MYC_TARGETS_V2	0.0e+00	3.0e-07	620	58	12	23467	GNL3,LAS1L,MPHOSPH10,NOP2,PES1,PLK4,PPRC1,RRP12,TCOF1,TMEM97,UTP20,WDR43
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.7e-06	1.4e-05	620	113	14	23467	ALDH18A1,DDX10,DKC1,EDEM1,EEF2,FKBP14,GEMIN4,IARS,KHSRP,NFYA,NOP14,PDIA5,SEC31A,TARS
HALLMARK_PROTEIN_SECRETION	3.9e-03	2.8e-02	620	96	8	23467	ARCN1,ARFGAP3,ATP7A,COPB2,IGF2R,SEC24D,SEC31A,ZW10
HALLMARK_WNT_BETA_CATENIN_SIGNALING	4.8e-03	3.0e-02	620	42	5	23467	DVL2,FZD1,HDAC2,MAML1,SKP2
HALLMARK_GLYCOLYSIS	7.1e-03	4.0e-02	620	200	12	23467	AURKA,B3GNT3,CLN6,COPB2,DEPDC1,ECD,GFPT1,GLCE,HDLBP,KIF20A,PAXIP1,RARS
HALLMARK_MTORC1_SIGNALING	1.8e-02	8.8e-02	620	200	11	23467	AURKA,BUB1,CCNF,CDC25A,EDEM1,EPRS,GMPS,NUP205,PITPNB,SLC1A5,TMEM97

5.18.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYOGENESIS	0.0e+00	6.0e-07	1209	200	32	23467	ACHE,ACTN2,APLNR,CAMK2B,CASQ1,CDKN1A,CHRNB1,CKB,CKMT2,CLU,DTNA,FABP3,FHL1,FXYD1,GABARAPL2,GNAO1,IFRD1,IGFBP7,MAPRE3,MEF2C,MRAS,MYOM2,PFKM,PGAM2,PRNP,PSEN2,SCHIP1,SGCA,SH3BGR,SORBS1,SYNGR2,TAGLN
HALLMARK_XENOBIOTIC_METABOLISM	5.0e-07	1.2e-05	1209	200	29	23467	ABCC3,ABCD2,ACO2,ALDH2,APOE,ARPP19,CA2,CBR1,CDO1,COMT,CYFIP2,CYP2J2,ENPEP,HMOX1,HSD11B1,NDRG2,NFS1,NINJ1,PINK1,RAP1GAP,RETSAT,SAR1B,SLC46A3,SLC6A12,TAT,TMBIM6,TMEM176B,TPST1,UPP1
HALLMARK_BILE_ACID_METABOLISM	4.3e-06	7.1e-05	1209	112	19	23467	ABCA3,ABCD2,ABCD3,BBOX1,CH25H,CYP46A1,FDXR,HSD17B6,NR3C2,OPTN,PEX11A,PEX11G,PFKM,PIPOX,PNPLA8,RETSAT,SLC23A2,SLC27A5,SLCO1A2
HALLMARK_COMPLEMENT	1.4e-05	1.4e-04	1209	200	26	23467	ACTN2,ANXA5,C3,CA2,CALM1,CASP10,CD59,CLU,CSRP1,DOCK4,F3,FDX1,GMFB,GNAI2,GRB2,L3MBTL4,LTF,MT3,NOTCH4,PDGFB,PPP2CB,PRSS3,RASGRP1,SCG3,SERPINB2,SPOCK2
HALLMARK_ESTROGEN_RESPONSE_LATE	1.4e-05	1.4e-04	1209	200	26	23467	ABCA3,ALDH3A2,AMFR,ASCL1,CA2,CD9,CDH1,CHPT1,CKB,CPE,CYP4F11,FGFR3,IL17RB,ITPK1,LTF,MAPT,MOCS2,OLFM1,PDLIM3,PLXNB1,RAB31,RET,SERPINA3,SLC24A3,SLC7A5,TSPAN13
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.0e-04	6.5e-04	1209	200	24	23467	ABAT,ABCA3,AMFR,CHPT1,ELF3,IL17RB,INHBB,ITPK1,LRIG1,MAPT,OLFM1,PDLIM3,PEX11A,RAB31,RASGRP1,RET,SEC14L2,SLC24A3,SLC7A5,SYBU,SYT12,TTC39A,TUBB2B,WWC1
HALLMARK_HEME_METABOLISM	1.0e-04	6.5e-04	1209	200	24	23467	ABCG2,ALAD,ALDH1L1,ALDH6A1,C3,CA2,ERMAP,FN3K,GDE1,HAGH,HBQ1,KAT2B,LMO2,MARCH2,OPTN,PDZK1IP1,PPP2R5B,RAP1GAP,SLC11A2,SLC6A9,SLC7A11,SNCA,TAL1,TMEM9B
HALLMARK_HYPOXIA	1.0e-04	6.5e-04	1209	200	24	23467	ALDOC,BCAN,CDKN1A,CSRP2,DTNA,EFNA1,ENO2,F3,GAPDH,GPC1,HMOX1,KIF5A,LXN,NCAN,PDGFB,PFKFB3,PGAM2,PHKG1,PPARGC1A,PRKCA,SDC3,SLC2A5,SLC37A4,TPD52
HALLMARK_UV_RESPONSE_UP	1.9e-04	1.0e-03	1209	158	20	23467	ACAA1,APOM,ARRB2,CA2,CCK,CDO1,CYB5R1,ENO2,HMOX1,MAPK8IP2,NTRK3,OLFM1,PDLIM3,RASGRP1,RET,RHOB,SLC25A4,SLC6A12,SOD2,TMBIM6
HALLMARK_FATTY_ACID_METABOLISM	5.1e-04	2.6e-03	1209	158	19	23467	ACAA1,ACO2,ACOT2,ALAD,ALDH3A2,CA2,CBR1,CPT2,ENO2,GCDH,GLUL,GSTZ1,HADHB,HPGD,HSDL2,LTC4S,RETSAT,SERINC1,TP53INP2
HALLMARK_KRAS_SIGNALING_UP	6.7e-04	3.1e-03	1209	200	22	23467	ACE,CA2,CAB39L,CPE,FLT4,GPRC5B,HDAC9,HSD11B1,IL33,LAPTM5,LAT2,MAP7,PECAM1,SCG3,SCG5,SCN1B,SERPINA3,TMEM176A,TMEM176B,TSPAN13,TSPAN7,WNT7A
HALLMARK_COAGULATION	5.1e-03	2.1e-02	1209	138	15	23467	APOC2,C3,CD9,CLU,CRIP2,CSRP1,F3,GDA,LEFTY2,PDGFB,PECAM1,RAC1,RAPGEF3,RGN,SERPINB2
HALLMARK_INFLAMMATORY_RESPONSE	7.6e-03	2.9e-02	1209	200	19	23467	APLNR,BEST1,CCRL2,CDKN1A,CLEC5A,CSF3R,F3,GABBR1,HRH1,IL18,ITGB8,NAMPT,NDP,RASGRP1,SCN1B,SLC11A2,SLC1A2,SRI,STAB1
HALLMARK_NOTCH_SIGNALING	2.3e-02	8.1e-02	1209	32	5	23467	DTX1,DTX4,PRKCA,PSEN2,PSENEN

5.19 KICH

5.19.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0000	0.000	202	200	30	23467	CCNB2,CCNE1,CDC20,CDCA3,CDK4,EZH2,HMGB2,ILF3,KIF22,KIF2C,MYBL2,NCAPD2,NOP56,PA2G4,PAICS,PLK1,PNN,POLA2,POLD1,POLD2,POLE,RANBP1,RFC2,RNASEH2A,SNRPB,TACC3,TBRG4,TUBG1,UBE2S,WDR90
HALLMARK_MYC_TARGETS_V1	0.0000	0.000	202	200	23	23467	CAD,CDC20,CDK4,EIF3B,ERH,LSM7,NOP56,PA2G4,POLD2,PSMB2,RANBP1,RNPS1,RPL14,RPL18,RPLP0,RPS2,RRP9,RUVBL2,SNRPA,SNRPA1,SNRPD1,SNRPD2,SRM
HALLMARK_G2M_CHECKPOINT	0.0000	0.000	202	200	18	23467	CCNB2,CCNF,CDC20,CDK4,CENPA,E2F1,EZH2,ILF3,KIF22,KIF2C,MYBL2,PLK1,POLA2,POLE,SNRPD1,TACC3,TROAP,UBE2S
HALLMARK_MYC_TARGETS_V2	0.0000	0.000	202	58	10	23467	CDK4,MRTO4,NOP2,NOP56,PA2G4,PLK1,PPAN,RRP9,SRM,TBRG4
HALLMARK_DNA_REPAIR	0.0019	0.019	202	150	6	23467	CSTF3,NME4,POLA2,POLD1,RFC2,TARBP2
HALLMARK_WNT_BETA_CATENIN_SIGNALING	0.0056	0.047	202	42	3	23467	DVL2,KAT2A,RBPJ

5.19.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_FATTY_ACID_METABOLISM	9.8e-05	0.0049	212	158	8	23467	ACAA2,ACOX1,ACSM3,EHHADH,GABARAPL1,MLYCD,SUCLG1,SUCLG2
HALLMARK_APICAL_SURFACE	6.6e-04	0.0170	212	44	4	23467	AFAP1L2,APP,GSTM3,MAL
HALLMARK_OXIDATIVE_PHOSPHORYLATION	2.3e-03	0.0390	212	200	7	23467	ACAA2,ACADSB,ATP1B1,BDH2,GOT2,NDUFS1,SUCLG1
HALLMARK_ADIPOGENESIS	9.8e-03	0.0820	212	200	6	23467	ACAA2,ACOX1,FZD4,LIFR,SUCLG1,TOB1
HALLMARK_KRAS_SIGNALING_UP	9.8e-03	0.0820	212	200	6	23467	CAB39L,CBR4,JUP,MPZL2,MTMR10,SPRY2
HALLMARK_P53_PATHWAY	9.8e-03	0.0820	212	200	6	23467	ACVR1B,APP,CYFIP2,TGFA,TNNI1,TOB1
HALLMARK_ANDROGEN_RESPONSE	1.3e-02	0.0920	212	100	4	23467	ARID5B,HERC3,LIFR,TPD52

5.20 THCA

5.20.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_OXIDATIVE_PHOSPHORYLATION	0.0e+00	0.0e+00	1218	200	114	23467	ABCB7,ACADM,ACADSB,ACAT1,ACO2,AFG3L2,AIFM1,ALAS1,ALDH6A1,ATP6V0B,ATP6V1F,ATP6V1H,BCKDHA,COX10,COX11,COX15,COX17,COX4I1,COX5A,COX6A1,COX6C,COX7A2,COX7B,COX8A,CS,CYC1,CYCS,DECR1,DLAT,DLD,DLST,ECHS1,ETFA,ETFB,ETFDH,FDX1,FH,FXN,GOT2,GPI,GRPEL1,HCCS,HSD17B10,HSPA9,IDH2,IDH3A,IDH3B,IDH3G,ISCA1,LDHB,MDH2,MRPL15,MRPL34,MRPS11,MRPS12,MRPS15,MRPS22,MRPS30,NDUFA1,NDUFA4,NDUFA5,NDUFA6,NDUFA8,NDUFA9,NDUFAB1,NDUFB4,NDUFB5,NDUFB6,NDUFB7,NDUFB8,NDUFC2,NDUFS2,NDUFS3,NDUFS4,NDUFS7,NDUFV1,NDUFV2,NNT,NQO2,OGDH,OPA1,OXA1L,PDHA1,PDHB,PDHX,PHYH,PRDX3,SDHA,SDHB,SDHC,SDHD,SLC25A11,SLC25A20,SLC25A3,SLC25A4,SLC25A5,SUCLA2,SUPV3L1,TIMM10,TIMM13,TIMM17A,TIMM50,TIMM8B,TOMM22,UQCR10,UQCR11,UQCRC1,UQCRC2,UQCRFS1,UQCRH,UQCRQ,VDAC1,VDAC2,VDAC3
HALLMARK_ADIPOGENESIS	0.0e+00	0.0e+00	1218	200	58	23467	ABCB8,ACADM,ACO2,ADIPOR2,AIFM1,ALDOA,ARAF,BCKDHA,CHUK,COL4A1,COQ3,COQ5,COQ9,COX6A1,COX7B,COX8A,CPT2,CRAT,CS,CYC1,DBT,DECR1,DLAT,DLD,ECHS1,ESRRA,ETFB,FAH,FZD4,GHITM,GPHN,GRPEL1,HADH,IDH3A,IDH3G,LIFR,MCCC1,MDH2,ME1,MRPL15,MTCH2,NDUFA5,NDUFAB1,NDUFB7,NDUFS3,PHYH,PIM3,PRDX3,SAMM50,SCARB1,SDHB,SDHC,SPARCL1,UQCR10,UQCR11,UQCRC1,UQCRQ,VEGFB
HALLMARK_FATTY_ACID_METABOLISM	0.0e+00	0.0e+00	1218	158	43	23467	ACADM,ACO2,ADIPOR2,ALDOA,AUH,BCKDHB,CPT2,CRAT,DECR1,DLD,DLST,ECHS1,EHHADH,EPHX1,ETFDH,FH,GAPDHS,GCDH,GPD1,GSTZ1,H2AFZ,HADH,HCCS,HMGCL,HMGCS1,HSD17B10,HSDL2,HSP90AA1,IDH3B,IDH3G,IDI1,MDH2,ME1,MLYCD,NSDHL,PDHA1,PDHB,RAP1GDS1,SDHA,SDHC,SDHD,SUCLA2,SUCLG2
HALLMARK_GLYCOLYSIS	5.3e-06	5.3e-05	1218	200	27	23467	AGL,ALDOA,COG2,DLD,FKBP4,G6PD,GAPDHS,GCLC,GOT1,GOT2,GYS1,HAX1,MDH2,ME1,NDUFV3,NSDHL,PGAM1,PGK1,POLR3K,PRPS1,PSMC4,SDHC,SLC25A13,STC2,TKTL1,TPI1,VLDLR
HALLMARK_MTORC1_SIGNALING	5.3e-06	5.3e-05	1218	200	27	23467	ACSL3,ADIPOR2,ALDOA,ASNS,CDC25A,DDIT3,EBP,FADS2,G6PD,GCLC,GLA,GOT1,GPI,HMBS,HMGCS1,HSPA9,IDI1,LGMN,ME1,PGK1,PIK3R3,PSMC4,SLC9A3R1,TMEM97,TPI1,VLDLR,YKT6
HALLMARK_MYC_TARGETS_V2	6.6e-06	5.5e-05	1218	58	13	23467	AIMP2,BYSL,DCTPP1,FARSA,GRWD1,LAS1L,NDUFAF4,PHB,PRMT3,SUPV3L1,TBRG4,TFB2M,TMEM97
HALLMARK_HEME_METABOLISM	1.5e-05	1.1e-04	1218	200	26	23467	ACSL6,ALDH1L1,ALDH6A1,ASNS,ATG4A,BLVRB,BSG,FECH,GCLC,GLRX5,HAGH,HBD,HMBS,HTATIP2,ISCA1,MOSPD1,MPP1,NNT,PPP2R5B,PRDX2,RAP1GAP,RNF123,SLC6A8,SMOX,UBAC1,XK
HALLMARK_MYC_TARGETS_V1	1.2e-04	7.3e-04	1218	200	24	23467	AIMP2,C1QBP,COX5A,CYC1,EIF2S1,GOT2,H2AFZ,MAD2L1,MRPS18B,NDUFAB1,NME1,PGK1,PHB,PRDX3,PSMC4,PSMD7,PSMD8,RUVBL2,SLC25A3,TCP1,TUFM,TXNL4A,VDAC1,VDAC3
HALLMARK_BILE_ACID_METABOLISM	2.2e-04	1.2e-03	1218	112	16	23467	AMACR,APOA1,CYP46A1,DIO1,FADS2,GNPAT,IDH2,IDI1,MLYCD,NR0B2,PEX11G,PFKM,PHYH,PXMP2,RXRA,SLC27A5
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	8.3e-04	4.2e-03	1218	49	9	23467	G6PD,GCLC,HMOX2,MPO,NDUFA6,NDUFB4,NDUFS2,PRDX2,TXNRD2
HALLMARK_UV_RESPONSE_UP	3.5e-03	1.6e-02	1218	158	17	23467	ALAS1,ALDOA,AP2S1,APOM,ASNS,ATP6V1F,BAK1,BSG,CEBPG,EPHX1,FKBP4,GRPEL1,HSPA2,PPIF,SLC25A4,SLC6A8,YKT6
HALLMARK_XENOBIOTIC_METABOLISM	8.2e-03	3.4e-02	1218	200	19	23467	ACO2,ALAS1,ARG2,BLVRB,CYP17A1,DHPS,EPHX1,ETFDH,FAH,GCLC,GSTM4,HNF4A,LONP1,NDRG2,NFS1,PINK1,RAP1GAP,SMOX,TMEM97
HALLMARK_PEROXISOME	1.9e-02	7.3e-02	1218	104	11	23467	CRAT,DIO1,EHHADH,GNPAT,HMGCL,HSD11B2,IDH2,IDI1,MLYCD,NUDT19,SLC25A4

5.20.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	1505	200	46	23467	ACTN1,ALOX15B,AMIGO2,B4GALT1,BAIAP2,BMP1,CADM3,CAP1,CDH3,CDH6,CDSN,CERCAM,CLDN4,CLDN8,CLDN9,CNN2,COL16A1,COL17A1,CTNND1,CX3CL1,DSC3,GNAI2,GRB7,ICAM1,ICAM4,ICAM5,ITGA2,ITGA3,ITGA9,ITGB4,JUP,LAMB3,LAMC2,MAPK13,MDK,MPZL2,MSN,MYL12B,MYL9,NLGN2,PARD6G,PBX2,RAC2,TGFBI,TSPAN4,VCL
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	1505	200	46	23467	APOL6,C1R,C1S,CASP7,CD40,CFB,CFH,DDX60,EPSTI1,FAS,GBP6,HLA-G,ICAM1,IFI44,IFIH1,IFIT1,IFIT2,IFNAR2,IL7,IRF1,IRF2,IRF9,ISG20,LY6E,METTL7B,MVP,MX1,MYD88,NUP93,OAS3,PARP12,PARP14,PLSCR1,PML,PTGS2,PTPN2,RIPK2,SAMD9L,SELP,SERPING1,SSPN,STAT2,TAPBP,TRIM14,TRIM21,UBE2L6
HALLMARK_ESTROGEN_RESPONSE_EARLY	0.0e+00	0.0e+00	1505	200	45	23467	ABAT,AFF1,ALDH3B1,ANXA9,AQP3,B4GALT1,CCND1,CD44,CELSR1,CELSR2,DHRS3,ELF1,ELF3,ENDOD1,ESRP2,FARP1,GJA1,IGF1R,INPP5F,KCNK5,KLK10,KRT15,KRT19,LAD1,MUC1,NAV2,NBL1,NRIP1,OPN3,PMAIP1,PTGES,RAB31,RARA,RPS6KA2,SEMA3B,SFN,SLC27A2,SLC7A2,SULT2B1,SVIL,SYT12,TFAP2C,TIAM1,TIPARP,ZNF185
HALLMARK_ESTROGEN_RESPONSE_LATE	0.0e+00	0.0e+00	1505	200	42	23467	AFF1,AGR2,ALDH3B1,ANXA9,ASS1,CCNA1,CCND1,CD44,CELSR2,CPE,CXCL14,EMP2,FARP1,GALE,GJB3,IGSF1,ISG20,KCNK5,KLK10,KRT19,LAMC2,MAPK13,MDK,NAB2,NBL1,NRIP1,OPN3,PERP,PLXNB1,PTGES,RAB31,RPS6KA2,SEMA3B,SERPINA1,SFN,SLC27A2,SULT2B1,TFAP2C,TIAM1,TNNC1,TRIM29,TSTA3
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	1505	200	42	23467	AHR,AXL,CCL20,CD40,CD55,CD70,CHST2,CX3CL1,DCBLD2,EREG,F3,FZD5,GPR183,HRH1,ICAM1,ICAM4,IFNGR2,IL1R1,IRAK2,IRF1,ITGB3,ITGB8,KCNJ2,LDLR,LIF,LPAR1,LY6E,LYN,OSMR,PDPN,PTPRE,RIPK2,RNF144B,SEMA4D,SLAMF1,SLC11A2,SLC7A2,TAPBP,TIMP1,TNFRSF1B,TNFSF15,TNFSF9
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	1505	200	42	23467	B4GALT1,BIRC3,CCL20,CCND1,CD44,CD83,CLCF1,CSF2,CXCL2,DRAM1,DUSP4,EFNA1,F2RL1,F3,FOSL1,GPR183,ICAM1,IFIH1,IFIT2,IFNGR2,IRF1,IRS2,LAMB3,LDLR,LIF,MAFF,MCL1,NFAT5,NFKB2,PHLDA2,PLAU,PTGS2,PTPRE,PTX3,RIPK2,SERPINB8,SLC2A3,TIPARP,TNFSF9,TRIB1,TRIP10,ZC3H12A
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	1505	97	28	23467	C1S,CD47,DDX60,ELF1,EPSTI1,GBP2,IFI44,IFIH1,IFIT2,IL7,IRF1,IRF2,IRF9,ISG20,LY6E,MOV10,MX1,NUB1,PARP12,PARP14,PARP9,PLSCR1,RIPK2,SAMD9L,STAT2,TRIM14,TRIM21,UBE2L6
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	1505	200	39	23467	ADAM8,AMMECR1,APOD,BIRC3,CCL20,CCND2,CFB,CFH,CPE,CSF2,CTSS,DCBLD2,DNMBP,DUSP6,EREG,ETV1,ETV4,ETV5,F2RL1,GALNT3,ITGA2,JUP,LIF,MALL,MPZL2,PLAU,PRDM1,PTBP2,PTGS2,RETN,SATB1,SEMA3B,SLPI,TMEM100,TNFRSF1B,TPH1,TRIB1,TSPAN1,VWA5A
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	1505	200	38	23467	ANG,ANXA5,APOBEC3F,APOBEC3G,C1R,C1S,C3,CASP7,CD55,CFB,CFH,CLU,CP,CTSC,CTSS,DOCK9,DUSP6,DYRK2,F3,F5,FYN,GATA3,GNAI2,IRF1,IRF2,LGALS3,LRP1,LTA4H,LYN,MAFF,MMP13,PHEX,PLSCR1,SERPINA1,SERPING1,SPOCK2,TIMP1,TMPRSS6
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	1505	161	33	23467	ANXA1,BCL10,BID,BIRC3,BMF,BNIP3L,CASP6,CASP7,CCNA1,CCND1,CCND2,CD44,CDC25B,CLU,CTNNB1,DPYD,ERBB2,ERBB3,EREG,FAS,IFNGR1,IRF1,ISG20,LGALS3,LMNA,MCL1,PEA15,PMAIP1,PPT1,RARA,SATB1,TGFB2,TIMP1
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	1505	200	37	23467	AGER,AHNAK,AHR,ALCAM,BATF3,CCND2,CD44,CD83,CDC42SE2,CDCP1,CSF2,DHRS3,ETV4,FURIN,IFNGR1,IGF1R,IKZF4,LIF,MAFF,MAPKAPK2,MUC1,MYO1C,NFKBIZ,NT5E,PLSCR1,SELP,SH3BGRL2,SHE,SLC1A5,SLC2A3,SNX9,TIAM1,TNFRSF18,TNFRSF1B,TNFRSF21,TNFSF11,WLS
HALLMARK_COAGULATION	0.0e+00	0.0e+00	1505	138	29	23467	ANG,ANXA1,BMP1,C1R,C1S,C3,CFB,CFH,CFI,CLU,COMP,CTSE,DUSP6,F3,FURIN,FYN,GNG12,ITGA2,ITGB3,LRP1,LTA4H,MAFF,MMP7,PLAU,PROS1,SERPINA1,SERPING1,TIMP1,TMPRSS6
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	1.0e-07	2.0e-07	1505	200	35	23467	BASP1,BDNF,BMP1,CD44,CDH6,COL16A1,COL7A1,COL8A2,COMP,DKK1,DPYSL3,EFEMP2,FAS,FGF2,FLNA,FSTL3,GJA1,ITGA2,ITGB3,LAMC2,LOXL1,LRP1,MYL9,NOTCH2,NT5E,NTM,PDLIM4,PMP22,PTX3,SDC1,SPOCK1,TGFB1,TGFBI,TIMP1,WNT5A
HALLMARK_IL6_JAK_STAT3_SIGNALING	5.0e-07	1.6e-06	1505	87	20	23467	CD44,CSF2,FAS,IFNGR1,IFNGR2,IL13RA1,IL1R1,IL7,IRF1,IRF9,ITGB3,MYD88,OSMR,PDGFC,PTPN2,STAT2,TGFB1,TNFRSF1A,TNFRSF1B,TNFRSF21
HALLMARK_ALLOGRAFT_REJECTION	1.2e-05	3.8e-05	1505	200	30	23467	AKT1,BCL10,CCND2,CCR2,CD40,CD47,CD96,CDKN2A,CTSS,DEGS1,EREG,FAS,FLNA,GBP2,HLA-DOB,HLA-G,ICAM1,IFNAR2,IFNGR1,IFNGR2,IL7,LIF,LYN,RIPK2,TAP2,TAPBP,TGFB1,TGFB2,TIMP1,TPD52
HALLMARK_P53_PATHWAY	1.2e-05	3.8e-05	1505	200	30	23467	ABAT,ALOX15B,BAIAP2,CCND2,CDKN2A,CYFIP2,DRAM1,EPHA2,EPS8L2,ERCC5,FAS,ITGB4,LIF,PERP,PLK3,PLXNB2,PTPRE,S100A10,SDC1,SFN,SP1,TGFB1,TM4SF1,TNFSF9,TNNI1,TP63,VWA5A,XPC,ZFP36L1,ZNF365
HALLMARK_CHOLESTEROL_HOMEOSTASIS	6.0e-05	1.8e-04	1505	74	15	23467	ALCAM,ANXA5,CBS,CLU,CTNNB1,CXCL16,ERRFI1,FBXO6,LDLR,LGALS3,MAL2,PLSCR1,S100A11,SEMA3B,TP53INP1
HALLMARK_NOTCH_SIGNALING	1.3e-04	3.6e-04	1505	32	9	23467	CCND1,DTX1,DTX4,FZD1,FZD5,MAML2,NOTCH2,PPARD,WNT5A
HALLMARK_UV_RESPONSE_DN	3.5e-04	9.1e-04	1505	144	21	23467	ANXA2,ATXN1,BDNF,CELF2,DDAH1,ERBB2,F3,FYN,GJA1,IGF1R,ITGB3,LDLR,LPAR1,MMP16,NOTCH2,PIAS3,PMP22,PTPRM,RBPMS,RUNX1,SDC2
HALLMARK_MYOGENESIS	4.7e-04	1.2e-03	1505	200	26	23467	AGRN,APOD,CLU,CTF1,DAPK2,EFS,EPHB3,ERBB3,FGF2,ITGB4,KIFC3,KLF5,MYBPH,MYO1C,NAV2,PLXNB2,PTP4A3,RIT1,SSPN,ST5,SVIL,TGFB1,TNNC1,TNNC2,TNNI1,TPM3
HALLMARK_GLYCOLYSIS	1.1e-03	2.5e-03	1505	200	25	23467	AGRN,ANG,B3GAT1,B3GNT3,B4GALT1,CASP6,CD44,CHST2,CLDN3,CLDN9,DSC2,EFNA3,ELF3,GALE,GPR87,IL13RA1,IRS2,ISG20,KDELR3,NT5E,PAM,SDC1,SDC2,TGFBI,TSTA3
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.2e-03	2.6e-03	1505	42	9	23467	CCND2,CSNK1E,CTNNB1,DKK1,FZD1,HEY2,MAML1,NCSTN,PPARD
HALLMARK_PEROXISOME	2.6e-03	5.6e-03	1505	104	15	23467	ATXN1,BCL10,CNBP,CRABP2,DHCR24,DHRS3,DLG4,MVP,PABPC1,PEX13,RXRG,SEMA3C,SLC27A2,SMARCC1,SULT2B1
HALLMARK_HYPOXIA	4.8e-03	9.2e-03	1505	200	23	23467	ANXA2,BNIP3L,CASP6,CHST2,CP,EFNA1,EFNA3,ERRFI1,F3,FBP1,IDS,IRS2,ISG20,KDELR3,MAFF,PAM,SDC2,SLC2A3,SLC6A6,SULT2B1,TGFBI,TIPARP,TPD52
HALLMARK_KRAS_SIGNALING_DN	4.8e-03	9.2e-03	1505	200	23	23467	CCNA1,CCR8,CDKAL1,CELSR2,CHST2,CLDN16,CLDN8,CLSTN3,CYP39A1,KCND1,KLHDC8A,KRT15,LYPD3,MAST3,MX1,MYO15A,PLAG1,SHOX2,SLC6A14,SLC6A3,SPTBN2,TGFB2,YPEL1
HALLMARK_XENOBIOTIC_METABOLISM	4.8e-03	9.2e-03	1505	200	23	23467	ABCC3,CASP6,CFB,COMT,CYFIP2,CYP2J2,CYP2S1,DDAH2,EPHA2,ESR1,FAS,FBP1,IL1R1,JUP,PPARD,PROS1,PTGES,PTGR1,SLC1A5,SLC6A12,SLC6A6,TGFB2,TNFRSF1A
HALLMARK_HEDGEHOG_SIGNALING	7.1e-03	1.3e-02	1505	36	7	23467	AMOT,CELSR1,HEY2,NRCAM,PML,TLE3,UNC5C
HALLMARK_APICAL_SURFACE	2.1e-02	3.6e-02	1505	44	7	23467	B4GALT1,CX3CL1,DCBLD2,GATA3,LYN,LYPD3,SLC34A3
HALLMARK_TGF_BETA_SIGNALING	2.1e-02	3.6e-02	1505	54	8	23467	CTNNB1,FNTA,FURIN,IFNGR2,RAB31,SKI,TGFB1,TGFBR1
HALLMARK_MITOTIC_SPINDLE	5.4e-02	9.0e-02	1505	199	19	23467	AKAP13,ARHGEF2,CEP57,CNTROB,CTTN,FARP1,FLNA,HOOK3,MAP1S,NET1,NOTCH2,NUMA1,PALLD,PCM1,PLEKHG2,PXN,TIAM1,VCL,WASF1

5.21 LGG

5.21.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.00000	2886	200	92	23467	APEX1,BUB3,CAD,CBX3,CCT3,CCT5,CCT7,CDK4,CLNS1A,CNBP,CSTF2,DEK,DHX15,DUT,EEF1B2,EIF3B,EIF3D,EIF4A1,ERH,EXOSC7,FBL,GNL3,H2AFZ,HDAC2,HDGF,HNRNPA1,HNRNPA2B1,HNRNPA3,HNRNPC,HNRNPD,HNRNPR,HNRNPU,ILF2,IMPDH2,KARS,LSM2,LSM7,MAD2L1,MCM5,MCM7,MRPL9,MYC,NAP1L1,NOP16,NOP56,NPM1,ODC1,PA2G4,PABPC1,PABPC4,PHB2,POLD2,PPM1G,PRPF31,PSMC4,PSMC6,PSMD3,RANBP1,RFC4,RNPS1,RPL14,RPL18,RPL22,RPL34,RPLP0,RPS10,RPS2,RPS3,RPS5,RPS6,RRP9,RSL1D1,RUVBL2,SERBP1,SET,SF3A1,SF3B3,SMARCC1,SNRPA,SNRPD1,SNRPD2,SNRPD3,SNRPG,SRM,SYNCRIP,TARDBP,TCP1,TRA2B,TRIM28,U2AF1,UBA2,USP1
HALLMARK_E2F_TARGETS	0.0e+00	0.00000	2886	200	76	23467	CDC25A,CDC25B,CDCA3,CDK1,CDK4,CDKN2A,CENPM,CHEK1,CHEK2,CKS2,CTCF,DEK,DNMT1,DONSON,DUT,EED,EXOSC8,EZH2,GINS1,GINS3,H2AFX,H2AFZ,HELLS,HMGB2,HNRNPD,ILF3,ING3,KIF18B,KIF22,LBR,LIG1,LMNB1,LUC7L3,LYAR,MAD2L1,MCM5,MCM7,MTHFD2,MXD3,MYBL2,MYC,NAA38,NAP1L1,NASP,NOP56,NUP107,NUP205,PA2G4,PAN2,PHF5A,PLK1,PNN,POLD1,POLD2,POLE,POLE4,PPM1D,PRIM2,RANBP1,RBBP7,RFC2,RFC3,RNASEH2A,RPA2,SMC3,SMC6,SNRPB,SSRP1,SYNCRIP,TMPO,TP53,TRA2B,TUBB,UBE2S,USP1,WDR90
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.00000	2886	58	33	23467	BYSL,CBX3,CDK4,EXOSC5,FARSA,GNL3,GRWD1,IPO4,LAS1L,MCM5,MPHOSPH10,MRTO4,MYBBP1A,MYC,NIP7,NOC4L,NOP16,NOP2,NOP56,NPM1,PA2G4,PES1,PLK1,PPAN,PPRC1,PUS1,RCL1,RRP9,SLC19A1,SRM,SUPV3L1,WDR43,WDR74
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.00000	2886	200	68	23467	BUB3,CCND1,CCNF,CDC25A,CDC25B,CDC7,CDK1,CDK4,CHAF1A,CHEK1,CKS2,CTCF,DBF4,DKC1,DTYMK,E2F2,E2F4,EWSR1,EZH2,FANCC,FBXO5,GINS2,H2AFX,H2AFZ,HIRA,HMGN2,HNRNPD,HNRNPU,ILF3,KATNA1,KIF11,KIF20B,KIF22,LBR,LMNB1,MAD2L1,MARCKS,MCM5,MNAT1,MTF2,MYBL2,MYC,NASP,NCL,NUMA1,ODC1,ODF2,PLK1,POLE,PRIM2,PRMT5,PRPF4B,RBM14,RPA2,SAP30,SFPQ,SMARCC1,SNRPD1,SYNCRIP,TGFB1,TLE3,TMPO,TRA2B,TRAIP,TROAP,UBE2S,UCK2,YTHDC1
HALLMARK_DNA_REPAIR	0.0e+00	0.00000	2886	150	49	23467	AAAS,BOLA2,CLP1,CSTF3,DGCR8,DUT,ELL,ERCC1,ERCC2,ERCC3,ERCC5,GTF2B,GTF3C5,IMPDH2,ITPA,LIG1,NME4,NT5C,POLA1,POLD1,POLE4,POLR1C,POLR2F,POLR2H,POLR3C,POLR3GL,POM121,PRIM1,RAD52,RAE1,RFC2,RFC3,RFC4,RPA2,SAC3D1,SF3A3,SNAPC4,SSRP1,SUPT5H,TAF1C,TARBP2,TP53,TSG101,UMPS,UPF3B,VPS37D,ZNF707,ZNRD1,ZWINT
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.3e-06	0.00001	2886	113	33	23467	ALDH18A1,ARFGAP1,ATF4,CNOT6,CXXC1,DCP2,DDIT4,DKC1,EDC4,EEF2,EIF4A1,EIF4A3,EIF4EBP1,EXOSC1,EXOSC10,EXOSC2,EXOSC4,EXOSC5,EXOSC9,FUS,GEMIN4,H2AFX,KHSRP,MTHFD2,NOP14,NOP56,NPM1,RPS14,RRP9,SEC11A,STC2,YIF1A,ZBTB17
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.9e-05	0.00013	2886	42	16	23467	AXIN1,CSNK1E,DLL1,DVL2,FRAT1,HDAC2,HDAC5,KAT2A,MAML1,MYC,NCOR2,NKD1,NOTCH1,PTCH1,RBPJ,TP53
HALLMARK_MITOTIC_SPINDLE	1.5e-04	0.00093	2886	199	43	23467	AKAP13,ARHGAP10,ARHGEF7,ATG4B,BCAR1,CDK1,CDK5RAP2,CENPJ,CEP192,CEP57,CNTROB,CYTH2,EPB41,FBXO5,GEMIN4,HDAC6,KATNA1,KIF11,KIF20B,KIF22,KNTC1,KPTN,LMNB1,MAP1S,MARCKS,NIN,NUMA1,PCNT,PIF1,PLEKHG2,PLK1,RHOT2,RICTOR,SAC3D1,SASS6,SMC3,TAOK2,TBCD,TUBD1,TUBGCP2,TUBGCP3,TUBGCP6,UXT

5.21.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_UV_RESPONSE_DN	0.0e+00	0.0e+00	1932	144	37	23467	ANXA4,ATP2B1,ATP2C1,ATRN,ATRX,ATXN1,BCKDHB,BDNF,BHLHE40,CAP2,CDC42BPA,DLC1,DLG1,F3,FHL2,GCNT1,GJA1,INPP4B,KALRN,KCNMA1,KIT,LDLR,LPAR1,LTBP1,MAP1B,MET,MGLL,MT1E,PIK3CD,PMP22,PRKAR2B,RGS4,SDC2,SIPA1L1,SYNJ2,TJP1,VLDLR
HALLMARK_HEME_METABOLISM	1.0e-07	3.0e-06	1932	200	40	23467	ACSL6,ADIPOR1,ALAD,ALDH1L1,ARHGEF12,ATP6V0A1,CA2,CAST,CTSB,ENDOD1,ERMAP,FECH,GCLM,GDE1,HEBP1,HTATIP2,KHNYN,LAMP2,LMO2,LPIN2,MARCH2,MGST3,MOCOS,MPP1,NNT,OPTN,OSBP2,P4HA2,SDCBP,SELENBP1,SIDT2,SLC7A11,SNCA,SYNJ1,TFRC,TMEM9B,TRAK2,TSPAN5,XK,YPEL5
HALLMARK_BILE_ACID_METABOLISM	3.0e-07	3.4e-06	1932	112	27	23467	ABCA2,ABCA5,ABCA8,ABCD2,ABCG4,ALDH1A1,AMACR,ATXN1,CYP27A1,CYP39A1,CYP46A1,DHCR24,GCLM,HSD17B4,HSD17B6,LCK,LONP2,NPC1,NR1I2,NR3C2,OPTN,PAOX,PEX19,PIPOX,RBP1,RETSAT,SLC23A2
HALLMARK_INFLAMMATORY_RESPONSE	3.0e-07	3.4e-06	1932	200	39	23467	AHR,APLNR,ATP2A2,ATP2B1,ATP2C1,AXL,BDKRB1,CD55,CD70,CHST2,CLEC5A,CX3CL1,CXCL11,F3,GCH1,HPN,HRH1,ICOSLG,IRAK2,KCNJ2,LCK,LDLR,LPAR1,LY6E,MET,NPFFR2,OPRK1,P2RY2,PSEN1,RASGRP1,SCN1B,SEMA4D,SLC1A2,SLC31A2,SLC4A4,SLC7A2,TNFAIP6,TNFSF10,TNFSF9
HALLMARK_XENOBIOTIC_METABOLISM	3.0e-07	3.4e-06	1932	200	39	23467	ABCD2,ACO2,ACOX2,ALAS1,AOX1,ARG2,ARPP19,ATP2A2,BCAT1,CA2,CBR1,CFB,CNDP2,CYP1A1,CYP27A1,ELOVL5,ETS2,FABP1,FAH,FBLN1,GABARAPL1,GCH1,GSTO1,HSD11B1,LPIN2,MAN1A1,MPP2,NFS1,NPC1,NQO1,PTGDS,PTGES,PTGR1,REG1A,RETSAT,SAR1B,SLC6A6,SSR3,TMBIM6
HALLMARK_FATTY_ACID_METABOLISM	5.0e-07	4.4e-06	1932	158	33	23467	ACAA2,ACADS,ACO2,ALAD,ALDH1A1,BCKDHB,CA2,CBR1,CIDEA,CPT1A,CYP1A1,DHCR24,ELOVL5,FABP1,FH,GABARAPL1,HSD17B4,HSDL2,HSP90AA1,HSPH1,INMT,LGALS1,MDH1,ME1,MGLL,RAP1GDS1,RETSAT,SDHA,SDHC,SERINC1,SUCLA2,TP53INP2,YWHAH
HALLMARK_ADIPOGENESIS	1.0e-06	6.8e-06	1932	200	38	23467	ACAA2,ACADS,ACO2,AGPAT3,ANGPT1,APLP2,CIDEA,CMBL,DHCR7,DLAT,DNAJB9,ENPP2,ESYT1,FAH,G3BP2,GHITM,HSPB8,IDH3A,ME1,MGLL,MGST3,MTCH2,MYLK,PQLC3,QDPR,RAB34,REEP5,RETSAT,RNF11,RTN3,SDHC,SLC27A1,SSPN,STOM,SULT1A1,TANK,UBQLN1,YWHAG
HALLMARK_PROTEIN_SECRETION	8.5e-06	5.3e-05	1932	96	22	23467	AP2M1,AP3S1,ATP1A1,ATP6V1H,CLTC,DNM1L,GALC,LAMP2,MAPK1,NAPG,RAB22A,RAB5A,SCAMP1,SCRN1,SEC24D,SSPN,STAM,STX7,TOM1L1,TPD52,USO1,VAMP3
HALLMARK_ESTROGEN_RESPONSE_LATE	4.0e-05	2.2e-04	1932	200	34	23467	ACOX2,ASS1,CA2,CELSR2,CHPT1,CXCL14,CYP4F11,DHCR7,DUSP2,DYNLT3,ELOVL5,EMP2,FABP5,FAM102A,FGFR3,FRK,HOMER2,HSPA4L,HSPB8,KLK10,LTF,MOCS2,OPN3,PERP,PRKAR2B,PRLR,PTGES,RABEP1,RPS6KA2,SNX10,TMPRSS3,TPD52L1,UNC13B,WFS1
HALLMARK_COMPLEMENT	9.4e-05	4.3e-04	1932	200	33	23467	C1S,CA2,CALM1,CD55,CD59,CFB,CLU,CSRP1,CTSB,DGKG,DOCK4,DOCK9,DPP4,F3,F8,GCA,HPCAL4,HSPA5,L3MBTL4,LAMP2,LCK,LGALS3,LIPA,LRP1,LTF,ME1,MT3,PCLO,PPP2CB,PSEN1,RASGRP1,S100A13,SERPING1
HALLMARK_MYOGENESIS	9.4e-05	4.3e-04	1932	200	33	23467	ACHE,ANKRD2,APLNR,APP,ATP6AP1,BHLHE40,CAMK2B,CHRNA1,CKMT2,CLU,COX7A1,DTNA,FABP3,FXYD1,GSN,HSPB8,ITGB5,KIFC3,LAMA2,LDB3,MEF2C,MRAS,MYLK,MYOM1,NQO1,PICK1,PPP1R3C,PRNP,PSEN2,PYGM,SCD,SSPN,TPD52L1
HALLMARK_MTORC1_SIGNALING	2.1e-04	8.2e-04	1932	200	32	23467	ACSL3,ACTR2,ATP2A2,ATP6V1D,BCAT1,BHLHE40,CANX,CYB5B,DHCR24,DHCR7,ELOVL5,GOT1,GPI,HSPA4,HSPA5,LDLR,ME1,QDPR,RAB1A,SCD,SKAP2,SLC6A6,SLC7A11,SQSTM1,STARD4,SYTL2,TBK1,TFRC,TUBA4A,USO1,VLDLR,WARS
HALLMARK_OXIDATIVE_PHOSPHORYLATION	2.1e-04	8.2e-04	1932	200	32	23467	ACAA2,ACO2,ALAS1,ATP1B1,ATP6AP1,ATP6V1C1,ATP6V1D,ATP6V1E1,ATP6V1H,CPT1A,CYCS,DLAT,FH,GOT2,GPI,IDH3A,ISCU,MDH1,MGST3,MRPL35,NDUFA4,NDUFS1,NNT,NQO2,OAT,OGDH,RETSAT,SDHA,SDHC,SLC25A20,SUCLA2,VDAC1
HALLMARK_ANDROGEN_RESPONSE	4.7e-04	1.5e-03	1932	100	19	23467	ACSL3,ALDH1A3,ANKH,DHCR24,DNAJB9,ELOVL5,GPD1L,HERC3,HOMER2,INPP4B,MAP7,MYL12A,NDRG1,PMEPA1,PTK2B,SCD,SEC24D,TMEM50A,TPD52
HALLMARK_ESTROGEN_RESPONSE_EARLY	4.7e-04	1.5e-03	1932	200	31	23467	BHLHE40,CELSR2,CHPT1,DHCR7,DLC1,DYNLT3,ELOVL2,ELOVL5,ENDOD1,FAM102A,FHL2,FRK,GJA1,HSPB8,INPP5F,KLK10,MAST4,OPN3,P2RY2,PTGES,RASGRP1,RHOD,RPS6KA2,SH3BP5,SLC7A2,SNX24,SYT12,TMPRSS3,TPD52L1,TTC39A,WFS1
HALLMARK_IL2_STAT5_SIGNALING	4.7e-04	1.5e-03	1932	200	31	23467	ABCB1,ADAM19,AHR,AKAP2,AMACR,ANXA4,APLP1,BHLHE40,CA2,CAPN3,CDC42SE2,F2RL2,FAH,GABARAPL1,GBP4,GSTO1,HOPX,IFITM3,ITGA6,MYO1E,NDRG1,PRNP,RABGAP1L,SHE,SLC39A8,SNX9,ST3GAL4,SWAP70,TNFSF10,TTC39B,TWSG1
HALLMARK_INTERFERON_ALPHA_RESPONSE	8.7e-04	2.5e-03	1932	97	18	23467	ADAR,BATF2,C1S,CD47,CMPK2,CNP,CXCL11,DHX58,GBP4,GMPR,IFITM3,LY6E,MX1,NCOA7,RSAD2,TDRD7,TMEM140,WARS
HALLMARK_COAGULATION	8.8e-04	2.5e-03	1932	138	23	23467	ACOX2,C1S,CFB,CLU,CSRP1,CTSB,DPP4,F2RL2,F3,F8,GDA,GNG12,GSN,HPN,HTRA1,ISCU,ITGA2,LAMP2,LRP1,P2RY1,RGN,S100A13,SERPING1
HALLMARK_KRAS_SIGNALING_DN	9.9e-04	2.6e-03	1932	200	30	23467	ABCG4,CAMK1D,CELSR2,CHST2,CLDN16,COPZ2,CYP39A1,FGFR3,FGGY,GPRC5C,HTR1B,HTR1D,IFNG,KCND1,MX1,MYO15A,NPHS1,PDE6B,PDK2,PLAG1,PRODH,RSAD2,RYR2,SIDT1,SLC25A23,SLC38A3,TEX15,THNSL2,THRB,WNT16
HALLMARK_APOPTOSIS	1.5e-03	3.8e-03	1932	161	25	23467	AIFM3,ANKH,APP,BCAP31,BCL2L2,BIRC3,CD2,CLU,CYLD,DNAJC3,DNM1L,DPYD,FEZ1,GCH1,GSN,IFITM3,LGALS3,PAK1,PPP3R1,PSEN1,PSEN2,RETSAT,RNASEL,SQSTM1,TNFSF10
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	2.0e-03	4.8e-03	1932	200	29	23467	APLP1,BDNF,CADM1,CAP2,CD59,CDH6,EDIL3,EFEMP2,FBLN1,FMOD,FUCA1,GJA1,GREM1,HTRA1,ITGA2,ITGB5,LAMA2,LGALS1,LRP1,MYLK,NTM,PDLIM4,PMEPA1,PMP22,RGS4,SCG2,SDC4,SPOCK1,THBS2
HALLMARK_INTERFERON_GAMMA_RESPONSE	4.0e-03	9.0e-03	1932	200	28	23467	ADAR,APOL6,BANK1,BATF2,C1S,CD274,CFB,CMPK2,CXCL11,DHX58,EIF4E3,GBP4,GCH1,IFITM3,ITGB7,LY6E,METTL7B,MX1,PFKP,RSAD2,SERPING1,SSPN,STAT4,TDRD7,TNFAIP6,TNFSF10,WARS,ZNFX1
HALLMARK_CHOLESTEROL_HOMEOSTASIS	7.0e-03	1.5e-02	1932	74	13	23467	ABCA2,ACSS2,CLU,CPEB2,DHCR7,FABP5,FBXO6,LDLR,LGALS3,PCYT2,PDK3,SCD,STARD4
HALLMARK_APICAL_JUNCTION	7.5e-03	1.5e-02	1932	200	27	23467	AMIGO2,CAP1,CD274,CDH4,CDH6,CDH8,CLDN11,CTNNA1,CX3CL1,DLG1,ITGA2,ITGA3,LAMB3,LAYN,LDLRAP1,MAP4K2,MPP5,NFASC,NRAP,PCDH1,PIK3CB,PPP2R2C,SIRPA,SKAP2,TJP1,WASL,YWHAH
HALLMARK_HYPOXIA	7.5e-03	1.5e-02	1932	200	27	23467	AMPD3,BHLHE40,CHST2,DTNA,F3,GPI,HK1,HSPA5,IDS,MT1E,NDRG1,NDST1,P4HA2,PDK3,PFKP,PPARGC1A,PPP1R3C,PYGM,SDC2,SDC4,SELENBP1,SLC6A6,STBD1,TPD52,TPST2,UGP2,VLDLR
HALLMARK_UV_RESPONSE_UP	1.0e-02	2.0e-02	1932	158	22	23467	ABCB1,ALAS1,AMD1,ATP6V1C1,CA2,CLCN2,CNP,CYB5B,CYB5R1,CYP1A1,EIF5,GCH1,HSPA2,NPTXR,PRKACA,RASGRP1,SQSTM1,SULT1A1,TFRC,TMBIM6,TUBA4A,TYRO3
HALLMARK_PI3K_AKT_MTOR_SIGNALING	1.2e-02	2.2e-02	1932	105	16	23467	ACTR2,AP2M1,CAB39,CAMK4,CLTC,DUSP3,GNA14,ITPR2,LCK,MAPK1,PLA2G12A,RALB,SQSTM1,TBK1,VAV3,YWHAB
HALLMARK_GLYCOLYSIS	1.4e-02	2.4e-02	1932	200	26	23467	ALDH7A1,ARPP19,CHST1,CHST2,CHST4,CHST6,FUT8,GOT1,GOT2,HS2ST1,HSPA5,LHPP,MDH1,ME1,MET,P4HA2,PDK3,PFKP,PGAM1,PPP2CB,PYGB,SDC2,SDHC,SRD5A3,UGP2,VLDLR
HALLMARK_PEROXISOME	2.3e-02	4.0e-02	1932	104	15	23467	ABCB1,ABCB9,ABCD2,ALDH1A1,ATXN1,CADM1,DHCR24,ELOVL5,HSD17B4,LONP2,NR1I2,RETSAT,SLC23A2,STS,YWHAH
HALLMARK_MITOTIC_SPINDLE	3.8e-02	6.3e-02	1932	199	24	23467	ABR,APC,ARHGAP29,ARHGEF12,CDC42BPA,CLIP1,DLG1,DOCK4,FGD4,FGD6,GSN,KIF3B,KIFAP3,MYO1E,PCGF5,PREX1,RAB3GAP1,RALBP1,RANBP9,RAPGEF5,SORBS2,SPTBN1,TUBA4A,WASL
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	4.5e-02	7.3e-02	1932	49	8	23467	GCLM,GLRX2,IPCEF1,MPO,NQO1,PFKP,PRNP,SRXN1

5.22 LUAD

5.22.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	2325	200	133	23467	ANP32E,ASF1B,ATAD2,AURKA,AURKB,BARD1,BIRC5,BRCA1,BRCA2,BUB1B,CCNB2,CCNE1,CDC20,CDC25A,CDC25B,CDCA3,CDCA8,CDK1,CDK4,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DEK,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,DSCC1,E2F8,ESPL1,EXOSC8,EZH2,GINS1,GINS3,GINS4,H2AFX,H2AFZ,HELLS,HMGA1,HMGB2,HMGB3,HMMR,HNRNPD,ILF3,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LBR,LIG1,LMNB1,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MSH2,MTHFD2,MXD3,MYBL2,NAA38,NASP,NCAPD2,NME1,NOLC1,NOP56,NUDT21,NUP107,NUP205,PAICS,PCNA,PLK1,PLK4,POLA2,POLD1,POLE,POP7,PPP1R8,PRIM2,PRKDC,PSMC3IP,PTTG1,RACGAP1,RAD51AP1,RAN,RANBP1,RFC2,RFC3,RNASEH2A,RPA1,RRM2,SLBP,SMC1A,SMC3,SMC4,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,SYNCRIP,TACC3,TBRG4,TCF19,TIMELESS,TIPIN,TK1,TMPO,TOP2A,TRIP13,TUBB,TUBG1,UBE2S,UBE2T,UNG,USP1,XPO1,ZW10
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	2325	200	123	23467	AURKA,AURKB,BARD1,BIRC5,BRCA2,BUB1,BUB3,CASP8AP2,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC25B,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F1,E2F2,E2F3,ESPL1,EXO1,EZH2,FANCC,FBXO5,GINS2,H2AFV,H2AFX,H2AFZ,HMGA1,HMGB3,HMMR,HNRNPD,HNRNPU,HOXC10,ILF3,INCENP,KATNA1,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,KPNB1,LBR,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MNAT1,MTF2,MYBL2,NASP,NCL,NDC80,NEK2,NOLC1,NUP98,NUSAP1,ODF2,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,PTTG3P,RACGAP1,RAD23B,RAD54L,RBL1,SAP30,SFPQ,SLC7A1,SLC7A5,SMARCC1,SMC1A,SMC2,SMC4,SNRPD1,SQLE,STIL,STMN1,SUV39H1,SYNCRIP,TACC3,TFDP1,TLE3,TMPO,TNPO2,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S,UCK2,WRN,XPO1
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	2325	200	96	23467	ABCE1,AIMP2,BUB3,C1QBP,CAD,CBX3,CCNA2,CCT2,CCT3,CCT5,CCT7,CDC20,CDC45,CDK2,CDK4,CSTF2,DDX18,DEK,EIF3B,EIF3J,EIF4A1,ERH,FBL,GNL3,H2AFZ,HDAC2,HDGF,HNRNPA2B1,HNRNPD,HNRNPR,HNRNPU,HPRT1,HSPD1,HSPE1,IARS,IFRD1,ILF2,KPNA2,KPNB1,LSM7,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,NCBP1,NCBP2,NME1,NOLC1,NOP16,NOP56,PCNA,POLE3,PPM1G,PRPF31,PRPS2,PSMB2,PSMC4,PSMD1,PSMD14,PSMD3,PSMD7,RAD23B,RAN,RANBP1,RFC4,RNPS1,RRM1,RRP9,RUVBL2,SET,SF3B3,SMARCC1,SNRPA,SNRPA1,SNRPD1,SNRPD3,SNRPG,SRM,SRPK1,SSB,SYNCRIP,TARDBP,TCP1,TFDP1,TRIM28,TXNL4A,TYMS,U2AF1,UBA2,USP1,VDAC1,XPO1,XPOT,YWHAE
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	2325	58	41	23467	AIMP2,BYSL,CBX3,CDK4,DDX18,EXOSC5,FARSA,GNL3,HSPD1,HSPE1,IPO4,LAS1L,MCM4,MCM5,MPHOSPH10,MRTO4,MYBBP1A,NDUFAF4,NOLC1,NOP16,NOP2,NOP56,PES1,PLK1,PLK4,PPAN,PPRC1,PRMT3,PUS1,RRP12,RRP9,SLC29A2,SRM,SUPV3L1,TBRG4,TCOF1,TMEM97,UNG,UTP20,WDR43,WDR74
HALLMARK_MTORC1_SIGNALING	0.0e+00	0.0e+00	2325	200	66	23467	ACLY,ALDOA,ASNS,AURKA,BUB1,CACYBP,CALR,CCNF,CCT6A,CDC25A,DDIT3,DHCR7,DHFR,EEF1E1,ELOVL5,ENO1,FADS1,FADS2,GMPS,GOT1,HMBS,HPRT1,HSP90B1,HSPA4,HSPA5,HSPA9,HSPD1,HSPE1,IFRD1,IMMT,MCM2,MCM4,MLLT11,MTHFD2,NUFIP1,NUP205,P4HA1,PDK1,PHGDH,PITPNB,PLK1,PNO1,POLR3G,PSAT1,PSMC4,PSMD12,PSMD14,PSMG1,RPA1,RRM2,RRP9,SHMT2,SLC1A5,SLC2A1,SLC7A5,SQLE,STC1,STIP1,TMEM97,TOMM40,TPI1,TRIB3,TUBG1,UCHL5,UNG,YKT6
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	0.0e+00	0.0e+00	2325	113	35	23467	ALDH18A1,ASNS,BANF1,CALR,CEBPG,CKS1B,DDX10,DKC1,EIF4A1,EIF4EBP1,EXOSC1,EXOSC10,EXOSC2,EXOSC5,FUS,H2AFX,HSP90B1,HSPA5,HSPA9,HYOU1,IARS,KHSRP,LSM4,MTHFD2,NOLC1,NOP56,PDIA6,PSAT1,RRP9,SLC7A5,STC2,TARS,TUBB2A,VEGFA,XPOT
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	2325	199	48	23467	ANLN,AURKA,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CENPE,CENPF,CENPJ,CKAP5,DLGAP5,ECT2,ESPL1,FBXO5,INCENP,KATNA1,KIF11,KIF15,KIF1B,KIF20B,KIF22,KIF2C,KIF3C,KIF4A,KNTC1,KPTN,LLGL1,LMNB1,LRPPRC,MARK4,NDC80,NEK2,NUSAP1,PIF1,PLK1,PPP4R2,PRC1,RACGAP1,SASS6,SMC1A,SMC3,SMC4,TOP2A,TPX2,TTK,WASF1,YWHAE
HALLMARK_SPERMATOGENESIS	2.0e-07	1.5e-06	2325	135	34	23467	ACRV1,ADAM2,AURKA,BRAF,BUB1,CCNB2,CDK1,CDKN3,CLGN,CLPB,CNIH2,DBF4,DDX25,EZH2,KIF2C,LDHC,MAP7,MAST2,MTOR,NCAPH,NEK2,PARP2,PSMG1,RFC4,RPL39L,SCG3,SCG5,STRBP,THEG,TOPBP1,TSN,TTK,TULP2,YBX2
HALLMARK_GLYCOLYSIS	3.0e-07	1.7e-06	2325	200	44	23467	ALDOA,ANGPTL4,ARTN,AURKA,B4GALT1,B4GALT2,CDK1,CENPA,CLDN3,CLDN9,DEPDC1,EFNA3,ENO1,ENO2,FKBP4,GOT1,HMMR,HOMER1,HS2ST1,HSPA5,KIF20A,LDHC,MIF,NANP,NASP,P4HA1,PAXIP1,PGAM2,PLOD1,PMM2,POLR3K,PPFIA4,PSMC4,RPE,SAP30,SLC25A10,SLC25A13,SPAG4,STC1,STC2,STMN1,TPI1,VCAN,VEGFA
HALLMARK_DNA_REPAIR	3.3e-06	1.6e-05	2325	150	34	23467	ADRM1,ARL6IP1,BOLA2,CCNO,CSTF3,ERCC8,FEN1,GTF3C5,HPRT1,LIG1,NCBP2,NME1,NUDT21,PCNA,POLA1,POLA2,POLD1,POLR2D,POLR2F,PRIM1,RAD51,RFC2,RFC3,RFC4,RFC5,SMAD5,SSRP1,SUPT5H,TAF6,TAF9,TMED2,TYMS,UPF3B,ZWINT
HALLMARK_UV_RESPONSE_UP	4.1e-06	1.9e-05	2325	158	35	23467	ALDOA,ASNS,CCNE1,CDC34,CDK2,CEBPG,CHRNA5,CLCN2,COL2A1,DNAJA1,ENO2,EPCAM,FEN1,FKBP4,FURIN,H2AFX,HNRNPU,HSPA13,KCNH2,LHX2,MAPK8IP2,NPTX2,ONECUT1,PARP2,POLE3,PPAT,RET,RFC4,SIGMAR1,SLC6A8,STIP1,TACR3,TARS,WIZ,YKT6
HALLMARK_PI3K_AKT_MTOR_SIGNALING	7.0e-03	2.9e-02	2325	105	19	23467	CALR,CDK1,CDK2,CDK4,DDIT3,E2F1,GNGT1,HSP90B1,MAPK8,NGF,PAK4,PDK1,PITX2,PLCB1,PPP2R1B,RAF1,SLC2A1,TRAF2,TRIB3

5.22.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	4847	200	125	23467	APOL6,ARID5B,AUTS2,B2M,BANK1,BATF2,BPGM,BTG1,C1R,C1S,CASP1,CASP4,CCL2,CCL5,CD40,CD69,CD74,CD86,CDKN1A,CFH,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL11,DDX58,DDX60,DHX58,EIF4E3,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GBP4,GBP6,GPR18,GZMA,HERC6,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,HLA-G,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT1,IFIT2,IFIT3,IFITM2,IFITM3,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL7,IRF1,IRF2,IRF4,IRF5,IRF8,IRF9,ITGB7,JAK2,KLRK1,LAP3,LCP2,LGALS3BP,LY6E,LYSMD2,MARCH1,METTL7B,MVP,MX1,MYD88,NFKB1,NMI,NOD1,OAS2,OASL,P2RY14,PARP12,PDE4B,PIM1,PLSCR1,PML,PSMB10,PSMB8,PSME1,PTPN1,PTPN6,RIPK1,RSAD2,RTP4,SAMD9L,SAMHD1,SELP,SERPING1,SLAMF7,SLC25A28,SOD2,SP110,SSPN,STAT2,STAT4,TAPBP,TNFAIP3,TNFSF10,TRIM14,TRIM21,TRIM26,TXNIP,UBE2L6,VAMP8,VCAM1,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	4847	200	121	23467	ACVR2A,B2M,BCAT1,BCL10,C2,CAPG,CCL13,CCL19,CCL2,CCL22,CCL4,CCL5,CCND2,CCND3,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD47,CD74,CD79A,CD80,CD86,CD8A,CD8B,CD96,CFP,CRTAM,CSF1,CSK,CTSS,CXCL13,CXCR3,DYRK3,ELF4,ETS1,F2R,FAS,FASLG,FCGR2B,FGR,FLNA,GBP2,GPR65,GZMA,HCLS1,HDAC9,HLA-A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,HLA-G,ICOSLG,IFNGR1,IGSF6,IKBKB,IL10,IL12B,IL12RB1,IL15,IL16,IL18,IL18RAP,IL2,IL27RA,IL2RB,IL2RG,IL4R,IL7,IRF4,IRF8,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LTB,LY86,LYN,MAP4K1,NCF4,NCK1,NCR1,NLRP3,PF4,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,SIT1,SPI1,SRGN,STAB1,STAT4,TAPBP,TGFB1,TGFB2,TLR1,TLR2,TLR3,TLR6,TNF,TRAT1,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	4847	200	111	23467	ABCA1,ACVR2A,AHR,APLNR,AXL,BTG2,C3AR1,C5AR1,CALCRL,CCL17,CCL2,CCL22,CCL5,CCR7,CCRL2,CD14,CD40,CD48,CD69,CD70,CD82,CDKN1A,CMKLR1,CSF1,CX3CL1,CXCL11,CXCR6,CYBB,EBI3,EDN1,EMP3,FPR1,GNA15,GP1BA,GPR132,GPR183,HAS2,HBEGF,HRH1,ICOSLG,IFNAR1,IL10,IL10RA,IL12B,IL15,IL15RA,IL18,IL18R1,IL18RAP,IL1A,IL1R1,IL2RB,IL4R,IL7R,IRAK2,IRF1,ITGB3,KCNA3,KCNJ2,KLF6,LAMP3,LCK,LCP2,LDLR,LTA,LY6E,LYN,MARCO,MEFV,MET,MSR1,MYC,NDP,NFKB1,NLRP3,NMI,NMUR1,NOD2,OLR1,P2RX7,PDE4B,PIK3R5,PROK2,PTAFR,PTGER2,PTGER4,PTGIR,RASGRP1,RGS16,RHOG,RNF144B,ROS1,RTP4,SCARF1,SELE,SELL,SGMS2,SLAMF1,SLC1A2,SLC31A2,STAB1,TACR1,TAPBP,TLR1,TLR2,TLR3,TNFRSF1B,TNFRSF9,TNFSF10,TNFSF9,VIP
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	4847	97	65	23467	B2M,BATF2,C1S,CASP1,CCRL2,CD47,CD74,CMPK2,CSF1,CXCL11,DDX60,DHX58,ELF1,EPSTI1,GBP2,GBP4,GMPR,HERC6,HLA-C,IFI27,IFI30,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFITM2,IFITM3,IL15,IL4R,IL7,IRF1,IRF2,IRF9,LAMP3,LAP3,LGALS3BP,LPAR6,LY6E,MX1,NMI,NUB1,OASL,PARP12,PARP9,PLSCR1,PSMB8,PSME1,RSAD2,RTP4,SAMD9,SAMD9L,SELL,SLC25A28,SP110,STAT2,TMEM140,TRIM14,TRIM21,TRIM26,TRIM5,TXNIP,UBA7,UBE2L6
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	4847	200	103	23467	ABCA1,AREG,BCL2A1,BIRC2,BIRC3,BMP2,BTG1,BTG2,BTG3,CCL2,CCL4,CCL5,CCRL2,CD44,CD69,CD80,CD83,CDKN1A,CFLAR,CSF1,CSF2,CXCL1,CXCL11,CXCL2,CXCL3,DDX58,DRAM1,DUSP1,DUSP2,EDN1,EGR1,EGR2,EGR3,EHD1,EIF1,ETS2,F2RL1,FOS,FOSB,GADD45A,GEM,GPR183,HBEGF,ICOSLG,IFIH1,IFIT2,IL12B,IL15RA,IL18,IL1A,IL7R,IRF1,JAG1,JUNB,KLF10,KLF2,KLF4,KLF6,KLF9,KYNU,LAMB3,LDLR,LITAF,MAP2K3,MAP3K8,MCL1,MYC,NFE2L2,NFKB1,NFKB2,NFKBIE,NR4A2,NR4A3,OLR1,PDE4B,PLEK,PLK2,PNRC1,PPP1R15A,PTGER4,PTX3,RCAN1,RELB,RNF19B,SAT1,SDC4,SERPINB2,SERPINB8,SGK1,SOD2,STAT5A,TANK,TLR2,TNF,TNFAIP3,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TRAF1,TSC22D1,ZC3H12A,ZFP36
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	4847	200	100	23467	ABCB1,ACE,ANKH,ANO1,ANXA10,BIRC3,BMP2,BPGM,BTC,C3AR1,CA2,CAB39L,CBR4,CCND2,CD37,CDADC1,CFH,CLEC4A,CMKLR1,CROT,CSF2,CTSS,CXCR4,DOCK2,EMP1,ENG,EPB41L3,ETS1,ETV1,F13A1,F2RL1,FBXO4,FCER1G,FLT4,FUCA1,GALNT3,GPNMB,GYPC,HBEGF,HDAC9,HKDC1,HSD11B1,IKZF1,IL10RA,IL2RG,IL33,IL7R,IRF8,ITGA2,ITGB2,ITGBL1,KCNN4,KLF4,LAPTM5,LAT2,LCP1,LY96,MAFB,MAP3K1,MAP4K1,MPZL2,MTMR10,NAP1L2,NR1H4,PDCD1LG2,PECAM1,PEG3,PIGR,PPBP,PPP1R15A,PRDM1,PSMB8,PTPRR,RABGAP1L,RBP4,RELN,RETN,RGS16,SATB1,SDCCAG8,SEMA3B,SERPINA3,SLPI,SOX9,SPARCL1,SPON1,SPRY2,ST6GAL1,TFPI,TLR8,TMEM100,TNFAIP3,TNFRSF1B,TNNT2,TRAF1,TSPAN1,TSPAN7,VWA5A,WNT7A,ZNF277
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	4847	200	97	23467	ACTN2,ANG,ANXA5,APOBEC3F,APOBEC3G,APOC1,C1QA,C1QC,C1R,C1S,C2,C3,CA2,CALM1,CASP1,CASP10,CASP4,CCL5,CD36,CD40LG,CD59,CDH13,CFH,CLU,CR1,CR2,CSRP1,CTSB,CTSC,CTSD,CTSH,CTSO,CTSS,CXCL1,DOCK10,DOCK4,EHD1,ERAP2,F8,FCER1G,FCN1,GATA3,GNAI2,GNG2,GNGT2,GP1BA,GP9,GRB2,GZMA,GZMK,HNF4A,IRF1,IRF2,ITGAM,JAK2,KLKB1,KYNU,L3MBTL4,LAP3,LCK,LCP2,LGALS3,LGMN,LIPA,LRP1,LTA4H,LTF,LYN,NOTCH4,OLR1,PCSK9,PHEX,PIK3CG,PIK3R5,PIM1,PLA2G7,PLEK,PLG,PLSCR1,PPP2CB,PRCP,PRSS36,RASGRP1,RHOG,SERPINA1,SERPINB2,SERPINC1,SERPING1,SH2B3,SPOCK2,TIMP2,TNFAIP3,VCPIP1,WAS,XPNPEP1,ZEB1,ZFPM2
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	4847	200	96	23467	ABCB1,ADAM19,AGER,AHNAK,AHR,AKAP2,ANXA4,BCL2,BCL2L1,BMP2,BMPR2,CA2,CAPG,CAPN3,CCND2,CCND3,CCR4,CD44,CD48,CD79B,CD81,CD83,CD86,CDC42SE2,CISH,CSF1,CSF2,CST7,CTLA4,CTSZ,ECM1,EMP1,EOMES,F2RL2,FAH,FGL2,FLT3LG,GABARAPL1,GATA1,GBP4,GLIPR2,GPR65,GSTO1,HOPX,ICOS,IFITM3,IFNGR1,IL10,IL10RA,IL18R1,IL1RL1,IL2RB,IL4R,IRF4,IRF8,ITGA6,ITIH5,KLF6,LRRC8C,LTB,MAP3K8,MAP6,MAPKAPK2,MUC1,MYC,PIM1,PLAGL1,PLSCR1,PRKCH,PRNP,PTCH1,PTGER2,PTH1R,RABGAP1L,RGS16,RNH1,RORA,SELL,SELP,SERPINB6,SERPINC1,SHE,SLC39A8,SMPDL3A,SOCS2,SWAP70,SYNGR2,TGM2,TIAM1,TLR7,TNFRSF1B,TNFRSF8,TNFRSF9,TNFSF10,TRAF1,WLS
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	4847	200	95	23467	ABHD4,AK1,BAIAP2,BLCAP,BMP2,BTG1,BTG2,CASP1,CCND2,CCND3,CCNG1,CD81,CD82,CDH13,CDKN1A,CDKN2AIP,CDKN2B,CEBPA,CLCA2,CTSD,CTSF,CYFIP2,DDB2,DEF6,DGKA,DRAM1,EPHA2,ERCC5,F2R,FAS,FDXR,FOS,FUCA1,GADD45A,GM2A,HBEGF,HMOX1,IFI30,IL1A,ISCU,ITGB4,KLF4,KRT17,LRMP,MAPKAPK3,MDM2,MXD4,NOTCH1,PDGFA,PHLDA3,PLK2,PLK3,POLH,PPP1R15A,PRMT2,RALGDS,RAP2B,RB1,RCHY1,RETSAT,RGS16,RNF19B,RPS12,RPS27L,RRAD,RXRA,S100A10,SAT1,SESN1,SFN,SLC35D1,SP1,STEAP3,STOM,TAX1BP3,TCN2,TGFA,TGFB1,TM4SF1,TM7SF3,TNFSF9,TNNI1,TOB1,TP63,TSC22D1,TXNIP,VAMP8,VDR,VWA5A,WWP1,XPC,ZBTB16,ZFP36L1,ZMAT3,ZNF365
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	4847	87	51	23467	A2M,ACVRL1,CCR1,CD14,CD36,CD44,CNTFR,CSF1,CSF2,CSF2RB,CXCL1,CXCL11,CXCL13,CXCL3,EBI3,FAS,GRB2,HMOX1,IFNAR1,IFNGR1,IL12RB1,IL13RA1,IL15RA,IL17RA,IL18R1,IL1R1,IL2RG,IL4R,IL7,IRF1,IRF9,ITGA4,ITGB3,LEPR,LTB,MAP3K8,MYD88,PDGFC,PF4,PIK3R5,PIM1,PLA2G2A,PTPN1,REG1A,STAM2,STAT2,TGFB1,TLR2,TNF,TNFRSF1A,TNFRSF1B
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	4847	161	73	23467	ADD1,ANKH,ANXA1,BCL10,BCL2L1,BCL2L2,BIRC3,BMP2,BTG2,BTG3,CASP1,CASP4,CAV1,CCNA1,CCND2,CD14,CD2,CD44,CD69,CDKN1A,CFLAR,CLU,CYLD,DAP,DCN,DPYD,EGR3,EMP1,F2R,FAS,FASLG,FDXR,FEZ1,GADD45A,GNA15,GPX1,GPX3,GSN,HGF,HMOX1,IFITM3,IFNGR1,IL18,IL1A,IRF1,LEF1,LGALS3,LMNA,LUM,MCL1,MMP2,NEDD9,PAK1,PDCD4,PDGFRB,PEA15,PLCB2,PRF1,PSEN2,RETSAT,RNASEL,SAT1,SATB1,SMAD7,SOD2,TGFB2,TGFBR3,TIMP2,TIMP3,TNF,TNFSF10,TSPO,TXNIP
HALLMARK_COAGULATION	0.0e+00	0.0e+00	4847	138	63	23467	A2M,ANG,ANXA1,APOA1,APOC1,APOC2,C1QA,C1R,C1S,C2,C3,CAPN2,CAPN5,CFD,CFH,CFI,CLU,CPB2,CSRP1,CTSB,CTSE,CTSH,CTSK,CTSO,DCT,F11,F2RL2,F8,GNG12,GP1BA,GP9,GSN,HMGCS2,HNF4A,HTRA1,ISCU,ITGA2,ITGB3,KLKB1,LEFTY2,LGMN,LRP1,LTA4H,MMP2,MMP7,MSRB2,OLR1,P2RY1,PECAM1,PEF1,PF4,PLEK,PLG,PROS1,RAPGEF3,RGN,SERPINA1,SERPINB2,SERPINC1,SERPING1,THBD,TIMP3,VWF
HALLMARK_MYOGENESIS	0.0e+00	0.0e+00	4847	200	77	23467	ABLIM1,ACTN2,AEBP1,AK1,APLNR,BAG1,CASQ1,CASQ2,CAV3,CD36,CDH13,CDKN1A,CFD,CLU,CNN3,COX7A1,DAPK2,DES,FGF2,FHL1,FXYD1,GABARAPL2,GJA5,GNAO1,GPX3,GSN,HBEGF,HSPB2,HSPB8,IGF1,IGFBP7,ITGB4,ITGB5,LAMA2,LDB3,LSP1,MAPRE3,MEF2A,MEF2C,MEF2D,MRAS,MYBPH,MYH11,MYH2,MYL3,MYLK,MYOM2,NOS1,NOTCH1,PDE4DIP,PKIA,PPP1R3C,PRNP,PSEN2,PVALB,PYGM,RB1,REEP1,SGCA,SGCD,SGCG,SH3BGR,SLN,SOD3,SORBS1,SORBS3,SPDEF,SSPN,ST5,SYNGR2,TGFB1,TNNC1,TNNI1,TNNI2,TNNT2,TNNT3,VIPR1
HALLMARK_UV_RESPONSE_DN	0.0e+00	1.0e-07	4847	144	59	23467	ACVR2A,ADD3,ANXA2,ANXA4,APBB2,ARHGEF9,ATP2B4,ATXN1,BDNF,CAV1,CDC42BPA,CELF2,CITED2,DAB2,DDAH1,DLC1,DUSP1,DYRK1A,EFEMP1,FBLN5,GJA1,GRK5,HAS2,ID1,ITGB3,KALRN,KCNMA1,LDLR,MAGI2,MAP2K5,MET,MGLL,MIOS,MT1E,MYC,NEK7,NFKB1,PDGFRB,PIK3CD,PLCB4,PMP22,PPARG,PRKCA,PRKCE,PTEN,PTGFR,PTPRM,RBPMS,RND3,RXRA,SLC22A18,SMAD7,SPOP,SYNE1,TFPI,TGFBR2,TGFBR3,WDR37,ZMIZ1
HALLMARK_BILE_ACID_METABOLISM	0.0e+00	1.0e-07	4847	112	49	23467	ABCA1,ABCA3,ABCA6,ABCA8,ABCA9,ABCD2,ABCD3,ACSL5,ALDH1A1,ALDH9A1,APOA1,AR,ATXN1,CAT,CH25H,CROT,CYP27A1,CYP39A1,CYP7A1,CYP7B1,DHCR24,EFHC1,EPHX2,FDXR,GNMT,GSTK1,HSD17B11,HSD17B4,HSD17B6,HSD3B7,LCK,MLYCD,NR1H4,NR1I2,NR3C2,NUDT12,OPTN,PAOX,PECR,PEX11A,PEX11G,PEX12,RBP1,RETSAT,RXRA,RXRG,SCP2,SLC22A18,SULT1B1
HALLMARK_XENOBIOTIC_METABOLISM	4.0e-07	1.1e-06	4847	200	72	23467	ABCC3,ABCD2,ABHD6,ACOX1,ACOX3,ACSM1,ADH1C,ADH7,ALDH2,ALDH3A1,ALDH9A1,AP4B1,ASL,ATOH8,BCAT1,BLVRB,CA2,CAT,CD36,CDO1,CES1,CNDP2,CROT,CYB5A,CYFIP2,CYP17A1,CYP27A1,CYP2C18,CYP2S1,DHRS1,DHRS7,EPHA2,ESR1,ETS2,F11,FAH,FAS,FBLN1,FMO3,GABARAPL1,GCNT2,GNMT,GSTA3,GSTO1,HMOX1,HNF4A,HSD11B1,HSD17B2,IGF1,IGFBP4,IL1R1,IRF8,KYNU,MAOA,NDRG2,PINK1,PLG,PROS1,PSMB10,PTGDS,RBP4,REG1A,RETSAT,SERTAD1,SLC12A4,SLC35D1,SLC6A12,TGFB2,TNFRSF1A,VNN1,VTN,XDH
HALLMARK_ESTROGEN_RESPONSE_EARLY	8.0e-07	2.3e-06	4847	200	71	23467	ABCA3,ABLIM1,ADD3,ALDH3B1,AQP3,AR,AREG,BAG1,BCL11B,BCL2,BLVRB,CALB2,CBFA2T3,CD44,CHPT1,CISH,CLIC3,CXCL12,DLC1,EGR3,ELF1,ENDOD1,FOS,GFRA1,GJA1,HR,HSPB8,IGFBP4,ITPK1,JAK2,KCNK5,KLF10,KLF4,KRT13,KRT15,KRT19,LAD1,MAST4,MLPH,MREG,MUC1,MYC,MYOF,NADSYN1,NBL1,OLFM1,PEX11A,PGR,PODXL,RAB17,RAB31,RAPGEFL1,RASGRP1,REEP1,RHOD,RPS6KA2,SEMA3B,SFN,SH3BP5,SLC1A1,SLC9A3R1,SYBU,SYNGR1,TGM2,THSD4,TIAM1,TMEM164,TMPRSS3,TOB1,WFS1,ZNF185
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	3.5e-06	8.8e-06	4847	200	69	23467	ABI3BP,AREG,BDNF,CALD1,CAPG,CD44,CD59,CDH11,CDH6,CXCL1,CXCL12,DAB2,DCN,DST,ECM1,ECM2,ELN,EMP3,FAS,FBLN1,FBLN5,FGF2,FLNA,FMOD,FUCA1,GADD45A,GEM,GJA1,GLIPR1,GPC1,HTRA1,IGFBP4,IL15,IL32,ITGA2,ITGB3,ITGB5,LAMA2,LAMA3,LOXL1,LRP1,LUM,MAGEE1,MATN2,MGP,MMP2,MYL9,MYLK,NTM,PCOLCE2,PDGFRB,PMP22,PTX3,QSOX1,SAT1,SDC4,SGCB,SGCD,SGCG,SLIT2,SLIT3,TGFB1,TGFBR3,TGM2,TIMP3,TNFAIP3,VCAM1,VIM,WIPF1
HALLMARK_ESTROGEN_RESPONSE_LATE	3.5e-06	8.8e-06	4847	200	69	23467	ABCA3,ADD3,ALDH3B1,AREG,ASS1,ATP2B4,BAG1,BCL2,BLVRB,BTG3,CA2,CACNA2D2,CAV1,CCNA1,CD44,CHPT1,CHST8,CISH,CLIC3,CXCL12,CXCL14,CYP4F11,DUSP2,EGR3,EMP2,FABP5,FOS,GJB3,HMGCS2,HOMER2,HR,HSPB8,IGFBP4,ITPK1,JAK1,JAK2,KCNK5,KLF4,KRT13,KRT19,LTF,MYOF,NBL1,OLFM1,PDCD4,PGR,PTPN6,RAB31,RAPGEFL1,RPS6KA2,SEMA3B,SERPINA1,SERPINA3,SERPINA5,SFN,SGK1,SLC9A3R1,SNX10,ST6GALNAC2,TIAM1,TMPRSS3,TNNC1,TOB1,TPSAB1,TRIM29,TST,TSTA3,WFS1,ZFP36
HALLMARK_HEME_METABOLISM	3.5e-06	8.8e-06	4847	200	69	23467	ABCG2,ACP5,ADD1,ADIPOR1,AGPAT4,ALAD,ALAS2,ANK1,AQP3,ARL2BP,ATP6V0A1,BLVRA,BLVRB,BMP2K,BPGM,BTG2,C3,CA2,CAT,CCDC28A,CCND3,CIR1,CLIC2,CTSB,CTSE,DCAF11,ENDOD1,ERMAP,EZH1,FBXO7,FBXO9,FOXJ2,GATA1,GYPC,GYPE,HBB,HEBP1,KAT2B,KEL,LMO2,LRP10,MAP2K3,MGST3,MPP1,NCOA4,NEK7,NFE2L1,OPTN,PDZK1IP1,PPOX,PQLC1,RANBP10,RIOK3,SDCBP,SELENBP1,SIDT2,SLC22A4,SLC25A38,SLC4A1,SLC6A9,SNCA,TAL1,TMEM9B,TNS1,TRAK2,TRIM58,UROD,VEZF1,YPEL5
HALLMARK_APICAL_JUNCTION	5.6e-05	1.3e-04	4847	200	65	23467	ACTG2,ACTN2,ADAM23,AMIGO1,ARHGEF6,ARPC2,BAIAP2,CADM3,CALB2,CAP1,CD209,CD34,CD86,CDH11,CDH6,CLDN18,CLDN5,COL17A1,CX3CL1,EPB41L2,EVL,GNAI1,GNAI2,ICAM2,ITGA10,ITGA2,ITGA3,ITGA9,ITGB4,JAM3,LAMA3,LAMB3,LAYN,LDLRAP1,LIMA1,MAPK11,MMP2,MPZL1,MPZL2,MSN,MYL9,NEGR1,NFASC,NLGN3,NRXN2,PARVA,PCDH1,PECAM1,PIK3CB,PTEN,PTPRC,RAC2,RRAS,RSU1,SDC3,SIRPA,SLIT2,SORBS3,SYK,TRAF1,TSPAN4,VASP,VCAM1,VWF,ZYX
HALLMARK_KRAS_SIGNALING_DN	1.1e-04	2.4e-04	4847	200	64	23467	ADRA2C,AKR1B10,BTG2,CAPN9,CCNA1,CCR8,CD207,CD40LG,CD80,CDH16,CLDN16,CNTFR,CPEB3,CYP39A1,DCC,EDAR,EDN1,FGGY,GP1BA,GPRC5C,H2AFY2,IDUA,IFI44L,IL12B,ITIH3,KCNMB1,KLK7,KRT13,KRT15,KRT4,KRT5,MAST3,MEFV,MTHFR,MX1,NOS1,NR4A2,NRIP2,P2RX6,PDE6B,PDK2,PRODH,PTGFR,PTPRJ,RSAD2,RYR2,SCGB1A1,SCN10A,SERPINB2,SGK1,SIDT1,SLC12A3,SLC16A7,SLC29A3,SLC6A14,SPRR3,SYNPO,TCL1A,TFF2,TGFB2,TGM1,THRB,UPK3B,ZBTB16
HALLMARK_FATTY_ACID_METABOLISM	2.1e-04	4.5e-04	4847	158	52	23467	ACAA1,ACAA2,ACADL,ACADS,ACOT2,ACOX1,ACSL4,ACSL5,ACSM3,ACSS1,ADH1C,ADH7,ALAD,ALDH1A1,ALDH3A1,ALDH9A1,AOC3,AUH,BLVRA,CA2,CA4,CBR3,CD1D,CD36,CRYZ,CYP4A11,CYP4A22,DECR1,DHCR24,EHHADH,GABARAPL1,GLUL,GPD1,HMGCS2,HPGD,HSD17B11,HSD17B4,INMT,LTC4S,MAOA,MGLL,MLYCD,NBN,PSME1,PTPRG,RETSAT,S100A10,SDHD,SERINC1,UBE2L6,UROD,VNN1
HALLMARK_ADIPOGENESIS	3.6e-04	7.4e-04	4847	200	62	23467	ABCA1,ACAA2,ACADL,ACADS,ACOX1,AGPAT3,ALDH2,ANGPT1,APLP2,ARAF,C3,CAT,CD151,CD302,CD36,CMPK1,CYP4B1,DECR1,DGAT1,DHRS7,DNAJB9,DRAM2,ELMOD3,ENPP2,EPHX2,ESYT1,FABP4,FAH,FZD4,GADD45A,GPX3,HSPB8,IFNGR1,ITIH5,LAMA4,LPCAT3,LTC4S,MGLL,MGST3,MYLK,OMD,ORM1,PDCD4,PGM1,PPARG,PQLC3,QDPR,REEP5,RETN,RETSAT,RIOK3,SCP2,SLC27A1,SORBS1,SPARCL1,SSPN,STAT5A,STOM,SULT1A1,TANK,TOB1,TST
HALLMARK_APICAL_SURFACE	6.0e-04	1.2e-03	4847	44	19	23467	AFAP1L2,AKAP7,CD160,CROCC,CX3CL1,GATA3,GHRL,IL2RB,IL2RG,LYN,MAL,MDGA1,NTNG1,PCSK9,PKHD1,RTN4RL1,SCUBE1,SRPX,SULF2
HALLMARK_PEROXISOME	6.5e-04	1.3e-03	4847	104	36	23467	ABCB1,ABCD2,ABCD3,ACAA1,ACOX1,ACSL4,ACSL5,ALDH1A1,ALDH9A1,ATXN1,BCL10,CAT,DHCR24,DLG4,EHHADH,EPHX2,FIS1,GSTK1,HSD17B11,HSD17B4,HSD3B7,MLYCD,MVP,NR1I2,PEX11A,PEX11B,PEX2,RETSAT,RXRG,SCGB1A1,SCP2,SEMA3C,SOD2,STS,TSPO,VPS4B
HALLMARK_PI3K_AKT_MTOR_SIGNALING	3.2e-03	6.0e-03	4847	105	34	23467	ADCY2,AP2M1,ARHGDIA,CAB39L,CAMK4,CDKN1A,CXCR4,DAPP1,DUSP3,FASLG,GRB2,IL2RG,IRAK4,ITPR2,LCK,MAP2K3,MAPK10,MKNK1,MYD88,NCK1,NOD1,PRKCB,PTEN,RALB,RIPK1,RPS6KA1,SFN,SLA,STAT2,THEM4,TIAM1,TNFRSF1A,UBE2D3,YWHAB
HALLMARK_UV_RESPONSE_UP	4.2e-03	7.6e-03	4847	158	47	23467	ABCB1,ACAA1,APOM,AQP3,ARRB2,BMP2,BTG1,BTG2,BTG3,CA2,CCND3,CDKN2B,CDO1,CLTB,CREG1,CXCL2,CYB5R1,DGAT1,DLG4,EIF5,FOS,FOSB,GPX3,GRINA,HLA-F,HMOX1,HTR7,IRF1,JUNB,LYN,MAOA,MGAT1,NPTXR,NTRK3,OLFM1,PLCL1,PTPRD,RAB27A,RASGRP1,RRAD,RXRB,SLC6A12,SOD2,SPR,SULT1A1,TST,UROD
HALLMARK_WNT_BETA_CATENIN_SIGNALING	7.1e-03	1.2e-02	4847	42	16	23467	AXIN2,CCND2,CUL1,DKK4,FZD1,GNAI1,JAG1,LEF1,MYC,NKD1,NOTCH1,NOTCH4,NUMB,PSEN2,PTCH1,TCF7
HALLMARK_TGF_BETA_SIGNALING	9.4e-03	1.6e-02	4847	54	19	23467	BMP2,BMPR2,ENG,ID1,ID3,JUNB,KLF10,LEFTY2,LTBP2,PPP1R15A,RAB31,RHOA,SKI,SMAD6,SMAD7,SMURF2,SPTBN1,TGFB1,UBE2D3
HALLMARK_NOTCH_SIGNALING	2.1e-02	3.4e-02	4847	32	12	23467	CUL1,DTX1,DTX2,FZD1,FZD7,HEYL,JAG1,MAML2,NOTCH1,PRKCA,PSEN2,ST3GAL6
HALLMARK_HEDGEHOG_SIGNALING	2.3e-02	3.7e-02	4847	36	13	23467	AMOT,CNTFR,CRMP1,DPYSL2,ETS2,GLI1,NRP2,PLG,PML,PTCH1,RTN1,SHH,UNC5C
HALLMARK_ANDROGEN_RESPONSE	4.9e-02	7.4e-02	4847	100	28	23467	ADAMTS1,ANKH,APPBP2,ARID5B,AZGP1,B2M,CCND3,DBI,DHCR24,DNAJB9,HERC3,HOMER2,HPGD,IQGAP2,KRT19,MAF,MYL12A,NCOA4,NKX3-1,PTK2B,RAB4A,SAT1,SGK1,SPDEF,TMPRSS2,TNFAIP8,TSC22D1,ZMIZ1
HALLMARK_ANGIOGENESIS	5.3e-02	7.7e-02	4847	36	12	23467	APOH,CCND2,JAG1,KCNJ8,LUM,OLR1,PDGFA,PF4,SERPINA5,SLCO2A1,THBD,VTN

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

5.23 MESO

5.23.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.23.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_P53_PATHWAY	0.00071	0.036	5	200	2	23467	CDKN1A,MDM2

5.24 PCPG

5.24.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.24.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.25 TGCT

5.25.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_G2M_CHECKPOINT	0.00000	0.0000	598	200	40	23467	BARD1,BUB1,CBX1,CCNF,CDC45,CDC6,CHAF1A,CKS1B,ESPL1,EXO1,HIRA,HMGB3,HMMR,ILF3,INCENP,KIF11,KIF20B,KIF2C,KIF4A,KPNA2,KPNB1,LIG3,MCM2,MCM5,MCM6,NCL,NOLC1,NUSAP1,PLK1,PLK4,PRC1,PRIM2,PRMT5,RAD54L,SMC1A,SMC2,STIL,TPX2,TROAP,UPF1
HALLMARK_E2F_TARGETS	0.00000	0.0000	598	200	34	23467	BARD1,BRMS1L,CDCA8,CIT,CKS1B,DIAPH3,DLGAP5,ESPL1,GINS1,GINS3,HMGB3,HMMR,ILF3,KIF18B,KIF2C,KIF4A,KPNA2,LIG1,MCM2,MCM4,MCM5,MCM6,MCM7,MELK,NOLC1,PLK1,PLK4,PPM1D,PRIM2,SMC1A,SPAG5,SSRP1,TUBB,WEE1
HALLMARK_MYC_TARGETS_V2	0.00000	0.0000	598	58	17	23467	FARSA,IMP4,IPO4,LAS1L,MCM4,MCM5,MYBBP1A,NOC4L,NOLC1,PES1,PLK1,PLK4,PPRC1,RRP12,TCOF1,TFB2M,UTP20
HALLMARK_MITOTIC_SPINDLE	0.00000	0.0000	598	199	27	23467	ANLN,ARFGEF1,BUB1,CDC42EP4,DLGAP5,ECT2,ESPL1,FLNB,GEMIN4,INCENP,ITSN1,KIF11,KIF20B,KIF2C,KIF3C,KIF4A,LLGL1,MAP1S,MYH10,NUSAP1,PLK1,PRC1,SHROOM2,SMC1A,STAU1,TPX2,WASL
HALLMARK_MYC_TARGETS_V1	0.00000	0.0000	598	200	23	23467	APEX1,CAD,CCT3,CDC45,CSTF2,EIF1AX,EIF3B,ETF1,ILF2,KPNA2,KPNB1,MCM2,MCM4,MCM5,MCM6,MCM7,NOLC1,PPM1G,PSMD3,PWP1,RNPS1,SF3B3,TRIM28
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	0.00015	0.0012	598	113	11	23467	ALDH18A1,CKS1B,EIF4G1,EXOSC10,GEMIN4,HSPA9,KHSRP,NOLC1,PARN,PDIA5,TARS

5.25.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INFLAMMATORY_RESPONSE	1.0e-07	2.5e-06	546	200	20	23467	AHR,CCL20,CD40,CD48,EMP3,EREG,GNA15,IFNGR2,IL18,KCNJ2,LCP2,NOD2,PTGER4,RGS1,RHOG,RIPK2,RNF144B,SCARF1,SLC31A2,VIP
HALLMARK_ALLOGRAFT_REJECTION	1.1e-06	2.8e-05	546	200	18	23467	CD28,CD4,CD40,CD74,EREG,HCLS1,HLA-A,HLA-DMA,IFNGR1,IFNGR2,IKBKB,IL18,IL27RA,IL7,LCP2,RIPK2,STAT4,UBE2D1
HALLMARK_KRAS_SIGNALING_UP	4.8e-06	6.0e-05	546	200	17	23467	ALDH1A3,BPGM,CCL20,CD37,CIDEA,CSF2,DUSP6,EREG,FBXO4,GLRX,ID2,IL33,KCNN4,LY96,PPBP,TRAF1,TSPAN7
HALLMARK_TNFA_SIGNALING_VIA_NFKB	4.8e-06	6.0e-05	546	200	17	23467	BTG1,CCL20,CD44,CSF2,DUSP2,ID2,IFNGR2,IL18,NFKBIE,PNRC1,PTGER4,RIPK2,SOD2,TANK,TIPARP,TNIP1,TRAF1
HALLMARK_IL2_STAT5_SIGNALING	2.0e-05	1.6e-04	546	200	16	23467	AHR,ALCAM,BCL2,CD44,CD48,CISH,CSF2,FLT3LG,IFNGR1,IL1R2,LRRC8C,PRKCH,RORA,RRAGD,TNFRSF4,TRAF1
HALLMARK_INTERFERON_GAMMA_RESPONSE	2.0e-05	1.6e-04	546	200	16	23467	BPGM,BTG1,CD40,CD74,GBP6,HLA-A,HLA-DMA,IL7,IRF5,LCP2,LYSMD2,P2RY14,RIPK2,SOD2,ST3GAL5,STAT4
HALLMARK_APOPTOSIS	1.1e-04	7.5e-04	546	161	13	23467	BID,BNIP3L,CD44,CYLD,DPYD,EREG,GNA15,IFNGR1,IL18,PLCB2,RNASEL,SOD2,TSPO
HALLMARK_HYPOXIA	2.6e-03	1.6e-02	546	200	12	23467	AMPD3,BCL2,BNIP3L,BTG1,GLRX,NR3C1,PNRC1,RORA,RRAGD,S100A4,SULT2B1,TIPARP
HALLMARK_IL6_JAK_STAT3_SIGNALING	4.2e-03	2.3e-02	546	87	7	23467	CD44,CSF2,IFNGR1,IFNGR2,IL1R2,IL7,LEPR
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	5.5e-03	2.7e-02	546	49	5	23467	GLRX,GLRX2,LSP1,MSRA,SOD2
HALLMARK_P53_PATHWAY	7.4e-03	3.4e-02	546	200	11	23467	BTG1,DEF6,DGKA,GM2A,LRMP,MAPKAPK3,NUPR1,RALGDS,S100A4,TGFA,TP63
HALLMARK_MYOGENESIS	1.9e-02	8.0e-02	546	200	10	23467	CHRNG,COX6A2,CSRP3,DAPK2,LSP1,MYBPH,MYH7,MYL2,RIT1,TNNI2

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0.048% of
## signature was found across genesets

5.26 UVM

5.26.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.26.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.27 THYM

5.27.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	1786	58	21	23467	AIMP2,EXOSC5,FARSA,HSPD1,HSPE1,IMP4,IPO4,LAS1L,MAP3K6,MYBBP1A,NOP16,PES1,PPRC1,RABEPK,RRP12,RRP9,SLC29A2,SORD,SRM,TBRG4,TMEM97
HALLMARK_ADIPOGENESIS	0.0e+00	4.0e-07	1786	200	40	23467	ABCB8,ACO2,ADIG,ADIPOQ,AGPAT3,AIFM1,ALDOA,ARAF,CHCHD10,CIDEA,CMBL,COQ9,COX7B,DDT,DGAT1,DHCR7,ECHS1,ELMOD3,ELOVL6,ESRRA,GADD45A,GPAM,GPX4,GRPEL1,LEP,LPL,MRAP,NDUFAB1,PFKL,PHYH,PIM3,QDPR,REEP5,RETSAT,SLC25A1,SLC5A6,TST,UBC,UQCR11,UQCRC1
HALLMARK_FATTY_ACID_METABOLISM	9.0e-07	1.5e-05	1786	158	31	23467	ACADVL,ACO2,ADH7,ALDH1A1,ALDH3A1,ALDOA,BLVRA,BPHL,CBR1,CEL,CIDEA,D2HGDH,ECHS1,ETFDH,FASN,G0S2,GAD2,GPD1,GRHPR,GSTZ1,HCCS,HMGCL,HMGCS2,HSD17B10,IL4I1,MCEE,MIF,NSDHL,PCBD1,PDHA1,RETSAT
HALLMARK_OXIDATIVE_PHOSPHORYLATION	3.0e-06	3.7e-05	1786	200	35	23467	ACADVL,ACAT1,ACO2,AIFM1,ATP6V0E1,ATP6V1F,COX15,COX5A,COX7B,ECHS1,ETFA,ETFDH,FXN,GPI,GPX4,GRPEL1,HCCS,HSD17B10,HSPA9,MRPS12,NDUFA1,NDUFA6,NDUFA8,NDUFAB1,NDUFS7,NDUFV1,OXA1L,PDHA1,PHYH,RETSAT,SLC25A12,TIMM50,UQCR11,UQCRC1,VDAC2
HALLMARK_ESTROGEN_RESPONSE_LATE	2.0e-05	1.7e-04	1786	200	33	23467	ASS1,BLVRB,CD44,CKB,CYP4F11,DCXR,DHCR7,EMP2,FGFR3,GALE,GLA,HMGCS2,ITPK1,KLF4,LLGL2,LSR,NMU,OLFM1,PKP3,PLAC1,PLXNB1,PPIF,PRLR,PTGES,RAPGEFL1,SLC27A2,SLC2A8,SORD,ST6GALNAC2,SULT2B1,TFF3,TRIM29,TST
HALLMARK_KRAS_SIGNALING_DN	2.0e-05	1.7e-04	1786	200	33	23467	ACTC1,ALOX12B,ARHGDIG,ATP4A,C5,CACNG1,CALML5,CCDC106,CLSTN3,CPA2,EGF,FGFR3,FGGY,GPRC5C,IFI44L,KCNE2,KRT15,LGALS7,MAGIX,MAST3,NR6A1,PAX4,PTGFR,RGS11,RIBC2,RSAD2,SHOX2,SMPX,SNCB,SPTBN2,TFCP2L1,TFF2,TNNI3
HALLMARK_UV_RESPONSE_UP	5.9e-05	4.2e-04	1786	158	27	23467	ALDOA,ASNS,ATP6V1F,CNP,DGAT1,EIF2S3,FURIN,GRPEL1,HSPA2,JUNB,KCNH2,LHX2,MAPK8IP2,NKX2-5,NPTXR,OLFM1,ONECUT1,PPIF,RHOB,SHOX2,SIGMAR1,SLC6A8,SPR,TST,TUBA4A,TYRO3,WIZ
HALLMARK_MTORC1_SIGNALING	1.2e-04	6.6e-04	1786	200	31	23467	ACACA,ALDOA,ASNS,DHCR7,EBP,ELOVL6,FDXR,GGA2,GLA,GOT1,GPI,HMBS,HSPA4,HSPA9,HSPD1,HSPE1,NFKBIB,NUPR1,PFKL,PNO1,PSMC4,QDPR,RRP9,SCD,SLC37A4,SORD,SRD5A1,TMEM97,TOMM40,TUBA4A,TUBG1
HALLMARK_XENOBIOTIC_METABOLISM	1.2e-04	6.6e-04	1786	200	31	23467	ACO2,ACSM1,ADH7,AHCY,ALDH3A1,ASL,BCAR1,BLVRB,BPHL,CBR1,CYP1A2,CYP2C18,CYP2J2,DCXR,DDT,ETFDH,F10,FETUB,GAD1,HSD17B2,LEAP2,LONP1,MCCC2,MT2A,NFS1,PTGES,RAP1GAP,RBP4,RETSAT,TMEM97,VTN
HALLMARK_BILE_ACID_METABOLISM	7.7e-04	3.8e-03	1786	112	19	23467	ABCA2,ABCA6,ABCA9,ABCD1,ALDH1A1,BBOX1,DIO2,FDXR,GSTK1,HSD3B1,HSD3B7,NR0B2,PEX11G,PHYH,RETSAT,RXRG,SLC27A2,SULT2B1,TFCP2L1
HALLMARK_GLYCOLYSIS	1.3e-03	5.3e-03	1786	200	28	23467	ABCB6,ALDOA,ANG,B4GALT2,CD44,CHST4,CHST6,CLDN3,CLN6,FAM162A,GALE,GMPPA,GOT1,GPC1,GPR87,GYS1,MIF,NDUFV3,NSDHL,PFKFB1,PMM2,PSMC4,PYGB,SDC3,SLC37A4,SPAG4,SRD5A3,TFF3
HALLMARK_MYOGENESIS	1.3e-03	5.3e-03	1786	200	28	23467	ACTC1,AK1,ANKRD2,CACNG1,CFD,CHRNA1,CKB,COX6A2,DES,HSPB2,KCNH2,KLF5,LDB3,MAPK12,MAPRE3,MB,MYH1,MYH11,MYH2,MYL1,MYO1C,PICK1,REEP1,SCD,SGCD,SLC6A8,SYNGR2,TNNC2
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	3.4e-03	1.3e-02	1786	49	10	23467	GPX4,HMOX2,JUNB,MGST1,NDUFA6,PDLIM1,PRDX2,PRDX4,SBNO2,TXNRD2
HALLMARK_CHOLESTEROL_HOMEOSTASIS	9.7e-03	3.5e-02	1786	74	12	23467	ABCA2,ATF5,CBS,DHCR7,EBP,FASN,FBXO6,LPL,MVK,NSDHL,SCD,TMEM97
HALLMARK_PEROXISOME	1.2e-02	4.0e-02	1786	104	15	23467	ABCB9,ABCD1,ALDH1A1,CEL,CLN6,FABP6,GSTK1,HMGCL,HSD3B7,NUDT19,RETSAT,RXRG,SLC27A2,SULT2B1,TSPO
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.8e-02	5.2e-02	1786	200	24	23467	BLVRB,CALB2,CD44,DHCR7,FASN,GLA,ITPK1,KLF4,KRT15,KRT8,MSMB,MYBBP1A,OLFM1,P2RY2,PMAIP1,PPIF,PTGES,RAPGEFL1,REEP1,RRP12,SLC27A2,SULT2B1,TFF3,UNC119
HALLMARK_HYPOXIA	1.8e-02	5.2e-02	1786	200	24	23467	ALDOA,CHST3,FAM162A,FOSL2,GPC1,GPI,GRHPR,GYS1,HAS1,ILVBL,INHA,JUN,MIF,MT2A,NAGK,PCK1,PFKL,SDC3,SLC25A1,SLC2A5,SLC37A4,SULT2B1,TPD52,TPST2
HALLMARK_APOPTOSIS	2.1e-02	5.7e-02	1786	161	20	23467	AIFM3,ANXA1,BCAP31,BCL2L10,CD44,EBP,FDXR,GADD45A,GPX4,IFNB1,JUN,LMNA,LUM,PMAIP1,RETSAT,RHOB,TIMP1,TNFSF10,TSPO,VDAC2
HALLMARK_PANCREAS_BETA_CELLS	3.0e-02	7.5e-02	1786	40	7	23467	CHGA,NKX6-1,PAX4,PCSK1,PDX1,SST,STXBP1
HALLMARK_APICAL_JUNCTION	3.1e-02	7.5e-02	1786	200	23	23467	ACTC1,ACTG2,ADAM23,CALB2,CDH15,CERCAM,CLDN14,CLDN4,CLDN5,CRB3,DSC1,GRB7,KCNH2,KRT31,LDLRAP1,MAPK11,PARD6G,PKD1,SDC3,SRC,STX4,THBS3,TUBG1
HALLMARK_INTERFERON_ALPHA_RESPONSE	3.2e-02	7.5e-02	1786	97	13	23467	BATF2,CNP,IFI27,IFI35,IFI44L,IFIH1,IFIT3,IRF7,ISG15,OASL,PARP12,RSAD2,SLC25A28
HALLMARK_COAGULATION	3.3e-02	7.5e-02	1786	138	17	23467	ANG,ANXA1,C8A,CFD,COMP,CRIP2,F10,F12,FURIN,HMGCS2,KLKB1,MSRB2,PF4,SH2B2,TF,TIMP1,TMPRSS6

5.27.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_PI3K_AKT_MTOR_SIGNALING	2.1e-05	0.0011	1451	105	19	23467	ATF1,CAMK4,CDK2,CDKN1B,CXCR4,GRB2,HSP90B1,IRAK4,ITPR2,LCK,PPP2R1B,RAF1,RALB,RIT1,SMAD2,TIAM1,TNFRSF1A,UBE2D3,YWHAB
HALLMARK_MITOTIC_SPINDLE	5.9e-04	0.0150	1451	199	25	23467	AKAP13,ARFGEF1,ARHGAP10,ARHGEF7,CCDC88A,CDC27,CEP57,DLG1,DOCK2,EPB41,KATNA1,KIF3C,MAPRE1,MARK4,PCGF5,PCM1,PCNT,PLEKHG2,RALBP1,RFC1,ROCK1,SEPT9,STK38L,TIAM1,TUBGCP3
HALLMARK_ALLOGRAFT_REJECTION	1.4e-03	0.0180	1451	200	24	23467	APBB1,BCL10,CCND2,CD3G,CD4,CD47,CD8A,CD8B,CD96,ETS1,GCNT1,HCLS1,IFNAR2,IL16,ITGB2,ITK,LCK,LCP2,MBL2,PRKCG,SIT1,SOCS5,TRAT1,ZAP70
HALLMARK_UV_RESPONSE_DN	1.4e-03	0.0180	1451	144	19	23467	ADD3,CDKN1B,CDON,DAB2,DLG1,DYRK1A,FBLN5,GCNT1,GRK5,INSIG1,IRS1,MAPK14,NIPBL,NR3C1,PIK3CD,PLCB4,PRKCA,SPOP,YTHDC1
HALLMARK_E2F_TARGETS	3.1e-03	0.0280	1451	200	23	23467	CBX5,CDKN1B,CTCF,DCK,DCLRE1B,HNRNPD,ING3,LUC7L3,NCAPD2,PDS5B,POLD3,PPM1D,PPP1R8,PSIP1,RAD1,RAD21,RFC1,SHMT1,SSRP1,TMPO,TRA2B,UBR7,USP1
HALLMARK_ANDROGEN_RESPONSE	3.4e-03	0.0280	1451	100	14	23467	ACTN1,ARID5B,BMPR1B,CDK6,GNAI3,HERC3,INSIG1,MYL12A,SLC26A2,SPCS3,TMPRSS2,TNFAIP8,VAPA,XRCC5
HALLMARK_COMPLEMENT	6.3e-03	0.0350	1451	200	22	23467	CASP10,CASP3,CASP4,DPP4,DYRK2,FDX1,GATA3,GNAI2,GNAI3,GNG2,GRB2,LCK,LCP2,PDP1,PHEX,PIK3CG,PIK3R5,RAF1,RASGRP1,USP15,USP16,ZEB1
HALLMARK_G2M_CHECKPOINT	6.3e-03	0.0350	1451	200	22	23467	ARID4A,CBX1,CDC27,CDKN1B,CTCF,CUL3,DR1,FOXN3,H2AFV,HIRA,HNRNPD,KATNA1,MAPK14,MTF2,NUP50,PDS5B,RAD21,SMARCC1,SMC2,TMPO,TRA2B,YTHDC1
HALLMARK_HEME_METABOLISM	6.3e-03	0.0350	1451	200	22	23467	ADD1,AQP3,BNIP3L,CAT,CCDC28A,CDC27,CIR1,EPB41,EPOR,FECH,GYPE,KAT2B,NR3C1,SDCBP,SEC14L1,SLC11A2,SNCA,SPTA1,TRAK2,USP15,VEZF1,YPEL5
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.4e-02	0.0680	1451	42	7	23467	AXIN1,AXIN2,CCND2,FRAT1,LEF1,MAML1,NUMB
HALLMARK_IL6_JAK_STAT3_SIGNALING	1.8e-02	0.0820	1451	87	11	23467	CBL,DNTT,GRB2,IFNAR1,IL10RB,IL17RA,ITGA4,PDGFC,PIK3R5,PTPN2,TNFRSF1A
HALLMARK_APOPTOSIS	2.2e-02	0.0910	1451	161	17	23467	ADD1,APP,BCL10,BCL2L1,BMF,BNIP3L,CASP2,CASP3,CASP4,CCND2,CDK2,CDKN1B,CREBBP,LEF1,RNASEL,ROCK1,SATB1

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

5.28 CHOL

5.28.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.28.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_PI3K_AKT_MTOR_SIGNALING	2.1e-05	0.0011	1451	105	19	23467	ATF1,CAMK4,CDK2,CDKN1B,CXCR4,GRB2,HSP90B1,IRAK4,ITPR2,LCK,PPP2R1B,RAF1,RALB,RIT1,SMAD2,TIAM1,TNFRSF1A,UBE2D3,YWHAB
HALLMARK_MITOTIC_SPINDLE	5.9e-04	0.0150	1451	199	25	23467	AKAP13,ARFGEF1,ARHGAP10,ARHGEF7,CCDC88A,CDC27,CEP57,DLG1,DOCK2,EPB41,KATNA1,KIF3C,MAPRE1,MARK4,PCGF5,PCM1,PCNT,PLEKHG2,RALBP1,RFC1,ROCK1,SEPT9,STK38L,TIAM1,TUBGCP3
HALLMARK_ALLOGRAFT_REJECTION	1.4e-03	0.0180	1451	200	24	23467	APBB1,BCL10,CCND2,CD3G,CD4,CD47,CD8A,CD8B,CD96,ETS1,GCNT1,HCLS1,IFNAR2,IL16,ITGB2,ITK,LCK,LCP2,MBL2,PRKCG,SIT1,SOCS5,TRAT1,ZAP70
HALLMARK_UV_RESPONSE_DN	1.4e-03	0.0180	1451	144	19	23467	ADD3,CDKN1B,CDON,DAB2,DLG1,DYRK1A,FBLN5,GCNT1,GRK5,INSIG1,IRS1,MAPK14,NIPBL,NR3C1,PIK3CD,PLCB4,PRKCA,SPOP,YTHDC1
HALLMARK_E2F_TARGETS	3.1e-03	0.0280	1451	200	23	23467	CBX5,CDKN1B,CTCF,DCK,DCLRE1B,HNRNPD,ING3,LUC7L3,NCAPD2,PDS5B,POLD3,PPM1D,PPP1R8,PSIP1,RAD1,RAD21,RFC1,SHMT1,SSRP1,TMPO,TRA2B,UBR7,USP1
HALLMARK_ANDROGEN_RESPONSE	3.4e-03	0.0280	1451	100	14	23467	ACTN1,ARID5B,BMPR1B,CDK6,GNAI3,HERC3,INSIG1,MYL12A,SLC26A2,SPCS3,TMPRSS2,TNFAIP8,VAPA,XRCC5
HALLMARK_COMPLEMENT	6.3e-03	0.0350	1451	200	22	23467	CASP10,CASP3,CASP4,DPP4,DYRK2,FDX1,GATA3,GNAI2,GNAI3,GNG2,GRB2,LCK,LCP2,PDP1,PHEX,PIK3CG,PIK3R5,RAF1,RASGRP1,USP15,USP16,ZEB1
HALLMARK_G2M_CHECKPOINT	6.3e-03	0.0350	1451	200	22	23467	ARID4A,CBX1,CDC27,CDKN1B,CTCF,CUL3,DR1,FOXN3,H2AFV,HIRA,HNRNPD,KATNA1,MAPK14,MTF2,NUP50,PDS5B,RAD21,SMARCC1,SMC2,TMPO,TRA2B,YTHDC1
HALLMARK_HEME_METABOLISM	6.3e-03	0.0350	1451	200	22	23467	ADD1,AQP3,BNIP3L,CAT,CCDC28A,CDC27,CIR1,EPB41,EPOR,FECH,GYPE,KAT2B,NR3C1,SDCBP,SEC14L1,SLC11A2,SNCA,SPTA1,TRAK2,USP15,VEZF1,YPEL5
HALLMARK_WNT_BETA_CATENIN_SIGNALING	1.4e-02	0.0680	1451	42	7	23467	AXIN1,AXIN2,CCND2,FRAT1,LEF1,MAML1,NUMB
HALLMARK_IL6_JAK_STAT3_SIGNALING	1.8e-02	0.0820	1451	87	11	23467	CBL,DNTT,GRB2,IFNAR1,IL10RB,IL17RA,ITGA4,PDGFC,PIK3R5,PTPN2,TNFRSF1A
HALLMARK_APOPTOSIS	2.2e-02	0.0910	1451	161	17	23467	ADD1,APP,BCL10,BCL2L1,BMF,BNIP3L,CASP2,CASP3,CASP4,CCND2,CDK2,CDKN1B,CREBBP,LEF1,RNASEL,ROCK1,SATB1

5.29 OV

5.29.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.29.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	4881	200	136	23467	ABCA1,ABI1,ADM,ADORA2B,ADRM1,AHR,APLNR,AQP9,ATP2A2,BDKRB1,BST2,C3AR1,C5AR1,CALCRL,CCL17,CCL2,CCL20,CCL22,CCL24,CCL5,CCR7,CCRL2,CD14,CD40,CD48,CD55,CD69,CD70,CD82,CDKN1A,CLEC5A,CMKLR1,CSF1,CSF3,CX3CL1,CXCL11,CXCL6,CXCL9,CXCR6,CYBB,EBI3,EDN1,EMP3,F3,FPR1,GCH1,GNA15,GNAI3,GP1BA,GPR132,GPR183,HBEGF,HIF1A,HRH1,ICAM1,ICOSLG,IFITM1,IFNAR1,IFNGR2,IL10,IL10RA,IL12B,IL15,IL15RA,IL18,IL18R1,IL18RAP,IL1A,IL1B,IL1R1,IL2RB,IL4R,IL6,IL7R,IRAK2,IRF1,ITGA5,ITGB3,KCNJ2,KLF6,LCK,LCP2,LDLR,LIF,LTA,LY6E,LYN,MARCO,MEFV,MSR1,NAMPT,NFKB1,NFKBIA,NMI,NOD2,OLR1,OSM,OSMR,P2RX4,PCDH7,PLAUR,PTAFR,PTGER2,PTGIR,PTPRE,PVR,RASGRP1,RELA,RGS1,RGS16,RHOG,RIPK2,RNF144B,RTP4,SCARF1,SCN1B,SELE,SELL,SGMS2,SLAMF1,SLC31A1,SLC31A2,SLC7A2,SPHK1,TACR1,TAPBP,TIMP1,TLR1,TLR2,TLR3,TNFRSF1B,TNFRSF9,TNFSF10,TNFSF15,TNFSF9,TPBG
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	4881	200	134	23467	ABCA1,B4GALT1,B4GALT5,BCL2A1,BCL3,BHLHE40,BIRC3,BMP2,CCL2,CCL20,CCL4,CCL5,CCND1,CCRL2,CD44,CD69,CD83,CDKN1A,CEBPD,CFLAR,CSF1,CSF2,CXCL1,CXCL11,CXCL2,CXCL3,CXCL6,DRAM1,DUSP4,DUSP5,EDN1,EFNA1,EGR2,EHD1,EIF1,ETS2,F2RL1,F3,FOS,FOSL1,FUT4,G0S2,GADD45A,GADD45B,GCH1,GEM,GFPT2,GPR183,HBEGF,HES1,ICAM1,ICOSLG,ID2,IER2,IER3,IER5,IFNGR2,IL12B,IL15RA,IL18,IL1A,IL1B,IL6,IL7R,IRF1,JUNB,KLF10,KLF2,KLF4,KLF6,KLF9,KYNU,LDLR,LIF,LITAF,MAFF,MAP3K8,MCL1,MSC,NAMPT,NFE2L2,NFKB1,NFKB2,NFKBIA,NFKBIE,NINJ1,OLR1,PDLIM5,PFKFB3,PHLDA1,PHLDA2,PLAU,PLAUR,PLEK,PLK2,PMEPA1,PNRC1,PTPRE,RCAN1,RELA,RELB,RHOB,RIPK2,RNF19B,SAT1,SDC4,SERPINB8,SGK1,SIK1,SLC2A3,SLC2A6,SOCS3,SOD2,SPHK1,SPSB1,TANK,TAP1,TIPARP,TLR2,TNC,TNF,TNFAIP2,TNFAIP3,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TRAF1,TRIB1,TRIP10,TSC22D1,YRDC,ZC3H12A,ZFP36
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	4881	200	130	23467	ABI1,AKT1,B2M,BCAT1,BCL10,BCL3,C2,CAPG,CCL11,CCL19,CCL2,CCL22,CCL4,CCL5,CCND3,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD3D,CD3E,CD4,CD40,CD40LG,CD47,CD7,CD74,CD86,CD8A,CD8B,CD96,CFP,CRTAM,CSF1,CTSS,CXCL9,CXCR3,DARS,EGFR,EIF3J,EIF5A,ELANE,ETS1,FAS,FASLG,FGR,GALNT1,GBP2,GCNT1,GPR65,GZMA,GZMB,HCLS1,HIF1A,HLA-A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICAM1,ICOSLG,IFNAR2,IFNG,IFNGR1,IFNGR2,IGSF6,IL10,IL12B,IL12RB1,IL15,IL16,IL18,IL18RAP,IL1B,IL27RA,IL2RA,IL2RB,IL2RG,IL4R,IL6,IL7,IRF8,ITGAL,ITGB2,ITK,JAK2,KRT1,LCK,LCP2,LIF,LTB,LY86,LYN,NCF4,NCR1,NME1,PF4,PRF1,PRKCB,PSMB10,PTPRC,RARS,RIPK2,RPL39,RPS19,SIT1,SPI1,SRGN,STAT4,TAP1,TAP2,TAPBP,TGFB1,TIMP1,TLR1,TLR2,TLR3,TLR6,TNF,TPD52,TRAT1,UBE2D1,UBE2N,WARS,WAS
HALLMARK_OXIDATIVE_PHOSPHORYLATION	0.0e+00	0.0e+00	4881	200	121	23467	ACAA1,ACADSB,ACO2,ATP1B1,ATP6AP1,ATP6V0B,ATP6V0E1,ATP6V1D,ATP6V1E1,ATP6V1F,ATP6V1G1,BAX,CASP7,COX11,COX17,COX4I1,COX5A,COX6A1,COX6B1,COX6C,COX7A2,COX7A2L,COX7B,COX7C,COX8A,CPT1A,CYB5A,CYC1,CYCS,DECR1,DLST,ECHS1,ETFA,ETFB,ETFDH,FDX1,FH,FXN,GPI,GRPEL1,HADHA,HADHB,HCCS,HSD17B10,HTRA2,IDH1,IDH2,IDH3A,IDH3G,LDHA,MDH1,MDH2,MGST3,MRPL11,MRPL15,MRPL34,MRPL35,MRPS11,MRPS12,MRPS15,MRPS22,MRPS30,MTRR,NDUFA1,NDUFA2,NDUFA3,NDUFA4,NDUFA6,NDUFA8,NDUFA9,NDUFAB1,NDUFB1,NDUFB2,NDUFB3,NDUFB4,NDUFB5,NDUFB6,NDUFB7,NDUFB8,NDUFC1,NDUFC2,NDUFS3,NDUFS4,NDUFS6,NDUFS7,NDUFS8,NDUFV1,NDUFV2,NQO2,OAT,OXA1L,PDHA1,PHB2,POR,RETSAT,SDHA,SDHB,SDHC,SDHD,SLC25A12,SLC25A3,SLC25A4,SLC25A5,SUCLG1,SURF1,TCIRG1,TIMM10,TIMM17A,TIMM8B,TIMM9,UQCR10,UQCR11,UQCRB,UQCRC1,UQCRC2,UQCRFS1,UQCRH,UQCRQ,VDAC1,VDAC2,VDAC3
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	4881	200	118	23467	APOL6,ARL4A,B2M,BANK1,BATF2,BST2,C1R,C1S,CASP1,CASP4,CASP7,CCL2,CCL5,CD274,CD40,CD69,CD74,CD86,CDKN1A,CFB,CFH,CIITA,CMKLR1,CSF2RB,CXCL11,CXCL9,EIF4E3,FAS,FCGR1A,FGL2,FPR1,GBP4,GBP6,GCH1,GPR18,GZMA,HIF1A,HLA-A,HLA-B,HLA-DMA,HLA-DQA1,HLA-DRB1,ICAM1,IDO1,IFI27,IFI30,IFITM2,IFITM3,IFNAR2,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL4R,IL6,IL7,IRF1,IRF5,IRF8,ITGB7,JAK2,KLRK1,LAP3,LCP2,LGALS3BP,LY6E,LYSMD2,METTL7B,MT2A,MVP,MYD88,NAMPT,NFKB1,NFKBIA,NMI,NOD1,OGFR,P2RY14,PFKP,PIM1,PLSCR1,PML,PNP,PSMA2,PSMA3,PSMB10,PSMB2,PSMB8,PSMB9,PSME1,PSME2,RBCK1,RIPK1,RIPK2,RTP4,SAMD9L,SECTM1,SELP,SLC25A28,SOCS3,SOD2,STAT4,TAP1,TAPBP,TNFAIP2,TNFAIP3,TNFSF10,TOR1B,TRIM14,TRIM21,TRIM26,UBE2L6,UPP1,VAMP5,VAMP8,VCAM1,WARS
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	4881	200	117	23467	ACTA2,ADAM12,ANPEP,BDNF,BGN,BMP1,CADM1,CALD1,CAPG,CD44,CD59,CDH11,COL12A1,COL16A1,COL1A1,COL1A2,COL3A1,COL4A1,COL4A2,COL5A1,COL5A2,COL5A3,COL6A2,COL6A3,CXCL1,CXCL12,CXCL6,DAB2,DCN,DKK1,ECM1,ECM2,EMP3,FAS,FBN1,FN1,FOXC2,FUCA1,FZD8,GADD45A,GADD45B,GEM,GJA1,GLIPR1,GREM1,HTRA1,ID2,IGFBP4,IL15,IL32,IL6,ITGA2,ITGA5,ITGAV,ITGB3,LAMA3,LAMC2,LGALS1,LOX,LOXL1,LOXL2,LRRC15,LUM,MFAP5,MGP,MMP1,MMP2,MMP3,MXRA5,MYL9,NID2,NNMT,NT5E,NTM,PLAUR,PLOD1,PLOD2,PLOD3,PMEPA1,PMP22,POSTN,PPIB,PRRX1,PTHLH,PVR,QSOX1,RGS4,RHOB,SAT1,SDC1,SDC4,SERPINE2,SERPINH1,SFRP4,SGCB,SGCD,SNAI2,SPARC,SPP1,TAGLN,TFPI2,TGFB1,TGFBI,TGM2,THBS1,THBS2,TIMP1,TNC,TNFAIP3,TNFRSF11B,TNFRSF12A,TPM1,TPM2,TPM4,VCAM1,VCAN,WIPF1
HALLMARK_MTORC1_SIGNALING	0.0e+00	0.0e+00	4881	200	115	23467	ACSL3,ACTR2,ACTR3,ADIPOR2,ALDOA,ARPC5L,ASNS,ATP2A2,ATP6V1D,BCAT1,BHLHE40,CACYBP,CALR,CANX,CD9,CDKN1A,CFP,COPS5,CORO1A,CTSC,CYB5B,CYP51A1,DAPP1,DDIT4,DHCR24,DHCR7,EBP,EDEM1,EEF1E1,EGLN3,EIF2S2,ELOVL5,ENO1,ETF1,FAM129A,FGL2,FKBP2,GAPDH,GBE1,GGA2,GLA,GLRX,GMPS,GOT1,GPI,HPRT1,HSPA5,HSPD1,HSPE1,IDH1,IDI1,IFI30,INSIG1,ITGB2,LDHA,LDLR,M6PR,MCM4,ME1,NAMPT,NFKBIB,NUPR1,PFKL,PGK1,PGM1,PIK3R3,PLOD2,PNO1,PNP,PPA1,PPIA,PRDX1,PSMA3,PSMA4,PSMC2,PSMC4,PSMC6,PSMD12,PSMD14,PSMG1,QDPR,RAB1A,RDH11,RPN1,RRM2,RRP9,SCD,SDF2L1,SEC11A,SERP1,SERPINH1,SHMT2,SKAP2,SLA,SLC1A4,SLC1A5,SLC2A1,SLC2A3,SLC37A4,SLC7A5,SLC9A3R1,SRD5A1,SSR1,STC1,STIP1,SYTL2,TBK1,TFRC,TOMM40,TPI1,TUBA4A,UCHL5,UFM1,VLDLR,WARS
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	4881	200	113	23467	ABCB1,ADAM19,AHCY,AHR,AKAP2,ALCAM,AMACR,ANXA4,ARL4A,BATF,BHLHE40,BMP2,CAPG,CCND3,CCR4,CD44,CD48,CD81,CD83,CD86,CDCP1,CISH,COL6A1,CSF1,CSF2,CST7,CTLA4,CTSZ,DCPS,DHRS3,ECM1,EMP1,ETV4,FAH,FAM126B,FGL2,FLT3LG,GADD45B,GBP4,GLIPR2,GPR65,GSTO1,HOPX,ICOS,IFITM3,IFNGR1,IL10,IL10RA,IL18R1,IL1R2,IL1RL1,IL2RA,IL2RB,IL4R,IRF8,ITGAE,ITGAV,KLF6,LIF,LRRC8C,LTB,MAFF,MAP3K8,MAPKAPK2,MUC1,MYO1C,MYO1E,NDRG1,NFKBIZ,NOP2,NRP1,NT5E,P2RX4,PHLDA1,PIM1,PLSCR1,PNP,PRKCH,PRNP,PTGER2,PTRH2,RGS16,RHOB,RHOH,RNH1,RORA,RRAGD,S100A1,SELL,SELP,SERPINB6,SLC1A5,SLC2A3,SLC39A8,SMPDL3A,SNX9,SOCS2,SPP1,SPRY4,ST3GAL4,SWAP70,SYNGR2,TGM2,TLR7,TNFRSF18,TNFRSF1B,TNFRSF21,TNFRSF8,TNFRSF9,TNFSF10,TRAF1,TTC39B,UCK2
HALLMARK_ADIPOGENESIS	0.0e+00	0.0e+00	4881	200	108	23467	ABCA1,ACADS,ACO2,ADIPOQ,ADIPOR2,AGPAT3,AK2,ALDOA,ANGPTL4,APLP2,ARAF,ARL4A,ATP1B3,BCL2L13,C3,CAT,CD302,CDKN2C,CHCHD10,CIDEA,CMBL,CMPK1,COL15A1,COL4A1,COX6A1,COX7B,COX8A,CRAT,CYC1,DDT,DECR1,DGAT1,DHCR7,DHRS7,DHRS7B,DNAJC15,DRAM2,ECHS1,ELMOD3,EPHX2,ESRRA,ETFB,FABP4,FAH,FZD4,GADD45A,GBE1,GHITM,GPHN,GRPEL1,HADH,HSPB8,IDH1,IDH3A,IDH3G,IFNGR1,LAMA4,LEP,LPL,LTC4S,MDH2,ME1,MGLL,MGST3,MRAP,MRPL15,MTCH2,NDUFAB1,NDUFB7,NDUFS3,OMD,PFKFB3,PFKL,PGM1,PIM3,POR,PPARG,PQLC3,QDPR,REEP5,REEP6,RETSAT,RIOK3,RNF11,SCARB1,SCP2,SDHB,SDHC,SLC1A5,SLC25A1,SOD1,SORBS1,SPARCL1,STOM,SUCLG1,TALDO1,TANK,TKT,TOB1,TST,UBC,UCP2,UQCR10,UQCR11,UQCRC1,UQCRQ,VEGFB,YWHAG
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	4881	200	107	23467	ADAM9,ANXA5,APOC1,C1QA,C1QC,C1R,C1S,C2,C3,C4BPB,CALM1,CALM3,CASP1,CASP10,CASP4,CASP5,CASP7,CCL5,CD40LG,CD46,CD55,CD59,CDA,CDH13,CFB,CFH,COL4A2,CP,CPM,CR1,CTSB,CTSC,CTSD,CTSH,CTSO,CTSS,CXCL1,DGKH,DOCK9,DPP4,DUSP5,EHD1,ERAP2,F10,F3,F7,F8,FCER1G,FCN1,FDX1,FN1,GATA3,GNAI2,GNAI3,GNB2,GNG2,GP1BA,GRB2,GZMA,GZMB,GZMK,HSPA5,IL6,IRF1,ITGAM,JAK2,KYNU,LAMP2,LAP3,LCK,LCP2,LGALS3,LIPA,LYN,MAFF,ME1,MMP13,OLR1,PDGFB,PFN1,PHEX,PIK3CG,PIM1,PLAUR,PLEK,PLSCR1,PPP2CB,PRCP,PRSS36,PSMB9,RABIF,RASGRP1,RCE1,RHOG,RNF4,S100A12,S100A13,S100A9,SERPINA1,SH2B3,STX4,TFPI2,TIMP1,TNFAIP3,USP8,VCPIP1,WAS
HALLMARK_HYPOXIA	0.0e+00	0.0e+00	4881	200	101	23467	ADM,ADORA2B,ALDOA,AMPD3,ANGPTL4,ANXA2,BGN,BHLHE40,CA12,CAV1,CDKN1A,COL5A1,CP,DCN,DDIT4,DPYSL4,EFNA1,EGFR,ENO1,ERRFI1,ETS1,F3,FAM162A,FBP1,FOS,GAA,GALK1,GAPDH,GBE1,GCNT2,GLRX,GPI,GRHPR,GYS1,HAS1,HDLBP,HEXA,HK1,HMOX1,HS3ST1,HSPA5,IDS,IER3,IL6,ILVBL,JMJD6,KDELR3,KLF6,LDHA,LOX,LXN,MAFF,MT1E,MT2A,NAGK,NDRG1,NR3C1,P4HA2,PDGFB,PDK3,PFKFB3,PFKL,PFKP,PGK1,PGM1,PGM2,PIM1,PKP1,PLAC8,PLAUR,PNRC1,PPP1R3C,PRDX5,PRKCA,RORA,RRAGD,S100A4,SCARB1,SDC2,SDC4,SIAH2,SLC25A1,SLC2A1,SLC2A3,SLC2A5,SLC37A4,SRPX,STBD1,STC1,SULT2B1,TGFBI,TGM2,TIPARP,TNFAIP3,TPBG,TPD52,TPI1,TPST2,UGP2,VLDLR,ZFP36
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	4881	200	100	23467	AEN,AK1,ALOX15B,BAK1,BAX,BMP2,CASP1,CCND3,CD81,CD82,CDH13,CDKN1A,CDKN2B,CLCA2,CTSD,DCXR,DDB2,DDIT4,DEF6,DGKA,DRAM1,EI24,EPHA2,EPHX1,EPS8L2,ERCC5,FAM162A,FAS,FOS,FUCA1,GADD45A,GM2A,GPX2,H2AFJ,HBEGF,HINT1,HIST1H1C,HMOX1,HRAS,IER3,IER5,IFI30,IL1A,IRAK1,ITGB4,KIF13B,KLF4,KRT17,LIF,LRMP,MAPKAPK3,NDRG1,NINJ1,NUDT15,NUPR1,OSGIN1,PCNA,PDGFA,PHLDA3,PLK2,PLK3,PMM1,POLH,PROCR,PTPRE,PVT1,RAP2B,RETSAT,RGS16,RHBDF2,RNF19B,RPL18,RPS27L,S100A10,S100A4,SAT1,SDC1,SEC61A1,SERTAD3,SFN,SLC35D1,SLC3A2,SPHK1,ST14,STEAP3,STOM,TAP1,TGFA,TGFB1,TM4SF1,TNFSF9,TOB1,TPRKB,TSC22D1,UPP1,VAMP8,VDR,VWA5A,WWP1,ZMAT3
HALLMARK_GLYCOLYSIS	0.0e+00	0.0e+00	4881	200	97	23467	ADORA2B,AKR1A1,ALDH9A1,ALDOA,ALG1,ANGPTL4,ARTN,B3GAT1,B3GAT3,B3GNT3,B4GALT1,B4GALT2,BIK,CACNA1H,CD44,CHPF,CHPF2,CHST1,CHST4,CHST6,CLN6,COL5A1,CYB5A,DCN,DDIT4,DPYSL4,EGFR,EGLN3,ELF3,ENO1,FAM162A,FKBP4,GALE,GALK1,GLRX,GMPPA,GMPPB,GOT1,GPR87,GUSB,GYS1,HAX1,HDLBP,HSPA5,IDH1,IDUA,IER3,IL13RA1,KDELR3,LDHA,MDH1,MDH2,ME1,MPI,NANP,NDUFV3,NSDHL,NT5E,P4HA2,PDK3,PFKP,PGAM1,PGK1,PGM2,PHKA2,PLOD1,PLOD2,PMM2,PPIA,PPP2CB,PRPS1,PSMC4,QSOX1,RARS,RBCK1,RPE,RRAGD,SDC1,SDC2,SDHC,SLC16A3,SLC35A3,SLC37A4,SOD1,SPAG4,SRD5A3,STC1,TALDO1,TGFA,TGFBI,TPBG,TPI1,TSTA3,TXN,UGP2,VCAN,VLDLR
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	4881	200	97	23467	ABCB1,ACE,ADAM8,ALDH1A3,ANGPTL4,ANKH,APOD,BIRC3,BMP2,C3AR1,CCL20,CD37,CFB,CFH,CIDEA,CLEC4A,CMKLR1,CSF2,CTSS,DOCK2,EMP1,ENG,EPB41L3,ETS1,ETV1,ETV4,F13A1,F2RL1,FBXO4,FCER1G,FLT4,FUCA1,G0S2,GFPT2,GLRX,GNG11,GPNMB,GYPC,HBEGF,ID2,IKZF1,IL10RA,IL1B,IL1RL2,IL2RG,IL33,IL7R,IRF8,ITGA2,ITGB2,ITGBL1,KCNN4,KLF4,LAPTM5,LAT2,LCP1,LIF,LY96,MAFB,MALL,MMD,MMP10,MMP11,MPZL2,MYCN,NRP1,PDCD1LG2,PECAM1,PIGR,PLAU,PLAUR,PLEK2,PPBP,PRDM1,PRRX1,PSMB8,PTPRR,RGS16,SCN1B,SERPINA3,SLPI,SPARCL1,SPP1,SPRY2,TFPI,TLR8,TMEM100,TMEM158,TMEM176A,TMEM176B,TNFAIP3,TNFRSF1B,TRAF1,TRIB1,TRIB2,VWA5A,YRDC
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	4881	87	55	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CD44,CD9,CSF1,CSF2,CSF2RB,CXCL1,CXCL11,CXCL3,CXCL9,EBI3,FAS,GRB2,HAX1,HMOX1,IFNAR1,IFNGR1,IFNGR2,IL10RB,IL12RB1,IL13RA1,IL15RA,IL17RA,IL18R1,IL1B,IL1R1,IL1R2,IL2RA,IL2RG,IL4R,IL6,IL7,IRF1,ITGB3,LTB,MAP3K8,MYD88,OSMR,PDGFC,PF4,PIM1,PLA2G2A,SOCS3,STAM2,TGFB1,TLR2,TNF,TNFRSF12A,TNFRSF1A,TNFRSF1B,TNFRSF21
HALLMARK_ESTROGEN_RESPONSE_LATE	0.0e+00	0.0e+00	4881	200	95	23467	ABHD2,ACOX2,AGR2,ALDH3B1,AMFR,ASS1,BAG1,BATF,BLVRB,CA12,CAV1,CCND1,CD44,CD9,CHPT1,CISH,COX6C,CXCL12,CYP4F11,DCXR,DHCR7,DNAJC1,DYNLT3,ELOVL5,EMP2,ETFB,FAM102A,FDFT1,FKBP4,FKBP5,FOS,GAL,GALE,GINS2,GJB3,GLA,HOMER2,HPRT1,HSPB8,ID2,IDH2,IGFBP4,IMPA2,ITPK1,JAK1,JAK2,KLF4,KLK10,KLK11,KRT13,KRT19,LAMC2,LSR,MAPK13,MICB,MOCS2,MYOF,NBL1,NXT1,OLFM1,OVOL2,PAPSS2,PDLIM3,PKP3,PPIF,PTGES,RAB31,RPS6KA2,S100A9,SCARB1,SCNN1A,SERPINA1,SERPINA3,SFN,SGK1,SIAH2,SLC1A4,SLC24A3,SLC2A8,SLC7A5,SLC9A3R1,SNX10,ST14,SULT2B1,TFAP2C,TFPI2,TNNC1,TOB1,TPBG,TPSAB1,TRIM29,TST,TSTA3,WFS1,ZFP36
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	4881	200	93	23467	ACTB,ACTG1,ACTG2,ACTN1,ACTN4,ADAM15,ADAM9,ADRA1B,ALOX15B,AMH,AMIGO2,ARHGEF6,ARPC2,ATP1A3,B4GALT1,BMP1,CADM3,CALB2,CAP1,CD274,CD34,CD86,CDH11,CDH15,CLDN11,CLDN14,CNN2,COL16A1,COL17A1,CRAT,CRB3,CX3CL1,EGFR,EVL,FBN1,GAMT,GNAI2,GTF2F1,HADH,HRAS,ICAM1,IKBKG,INSIG1,ITGA2,ITGA9,ITGB4,JAM3,LAMA3,LAMC2,LDLRAP1,LIMA1,MADCAM1,MAPK11,MAPK13,MAPK14,MMP2,MPZL1,MPZL2,MSN,MVD,MYL12B,MYL9,NEXN,NFASC,PARVA,PCDH1,PECAM1,PFN1,PIK3CB,PIK3R3,PPP2R2C,PTEN,PTPRC,RAC2,RRAS,RSU1,SHC1,SHROOM2,SIRPA,SKAP2,SORBS3,STX4,TGFBI,TNFRSF11B,TRAF1,TSPAN4,VASP,VCAM1,VCAN,VCL,WASL,YWHAH,ZYX
HALLMARK_ESTROGEN_RESPONSE_EARLY	0.0e+00	0.0e+00	4881	200	93	23467	ABHD2,ADCY9,ALDH3B1,AMFR,B4GALT1,BAG1,BHLHE40,BLVRB,CA12,CALB2,CBFA2T3,CCND1,CD44,CHPT1,CISH,CXCL12,DHCR7,DHRS3,DLC1,DYNLT3,ELF3,ELOVL5,ENDOD1,FAM102A,FDFT1,FHL2,FKBP4,FKBP5,FOS,GFRA1,GJA1,GLA,HES1,HSPB8,IGFBP4,ITPK1,JAK2,KCNK15,KLF10,KLF4,KLK10,KRT13,KRT15,KRT18,KRT19,KRT8,LAD1,MAST4,MICB,MLPH,MUC1,MYOF,NADSYN1,NBL1,NXT1,OLFM1,OVOL2,PAPSS2,PDLIM3,PMAIP1,PPIF,PTGES,RAB17,RAB31,RASGRP1,RHOD,RPS6KA2,SCARB1,SCNN1A,SEC14L2,SFN,SIAH2,SLC1A1,SLC1A4,SLC24A3,SLC2A1,SLC37A1,SLC7A2,SLC7A5,SLC9A3R1,SULT2B1,SYT12,TFAP2C,TGM2,THSD4,TIPARP,TMEM164,TOB1,TPBG,TSKU,WFS1,WWC1,ZNF185
HALLMARK_FATTY_ACID_METABOLISM	0.0e+00	0.0e+00	4881	158	78	23467	ACAA1,ACADS,ACO2,ACOT8,ACSL1,ACSL4,ACSL5,ADIPOR2,ALAD,ALDH1A1,ALDH9A1,ALDOA,AOC3,APEX1,AQP7,BLVRA,CBR1,CBR3,CCDC58,CD1D,CIDEA,CPT1A,CRAT,DECR1,DHCR24,DLST,ECHS1,ELOVL5,EPHX1,ERP29,ETFDH,FH,FMO1,G0S2,GLUL,GPD1,GRHPR,GSTZ1,HADH,HADHB,HCCS,HSD17B10,HSP90AA1,IDH1,IDH3G,IDI1,IL4I1,INMT,LDHA,LGALS1,LTC4S,MCEE,MDH1,MDH2,ME1,MGLL,NCAPH2,NSDHL,PCBD1,PDHA1,PSME1,PTS,RDH11,REEP6,RETSAT,S100A10,SDHA,SDHC,SDHD,SMS,SUCLG1,SUCLG2,TDO2,UBE2L6,UROS,VNN1,XIST,YWHAH
HALLMARK_XENOBIOTIC_METABOLISM	0.0e+00	0.0e+00	4881	200	91	23467	ABCC3,ACO2,ACOX2,ACOX3,ACP2,AHCY,AKR1C2,AKR1C3,ALDH9A1,AP4B1,AQP9,ASL,ATP2A2,BCAR1,BCAT1,BLVRB,CAT,CBR1,CDA,CFB,CNDP2,COMT,CRP,CYB5A,CYP2J2,CYP2S1,DCXR,DDT,DHRS1,DHRS7,ELOVL5,EPHA2,EPHX1,ETFDH,ETS2,F10,FAH,FAS,FBP1,FETUB,FMO1,FMO3,GCH1,GCKR,GCNT2,GSTO1,HMOX1,HPRT1,HRG,ID2,IDH1,IGFBP4,IL1R1,IRF8,KARS,KYNU,MAN1A1,MT2A,MTHFD1,NINJ1,NPC1,NQO1,PAPSS2,PDLIM5,PGRMC1,PMM1,POR,PROS1,PSMB10,PTGES,PTGES3,PTGR1,PTS,PYCR1,RETSAT,SAR1B,SERTAD1,SHMT2,SLC1A5,SLC35D1,SLC46A3,SMOX,SPINT2,SSR3,TDO2,TMBIM6,TMEM176B,TNFRSF1A,UPP1,VNN1,VTN
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	4881	161	75	23467	ANKH,ANXA1,BAX,BCAP31,BCL10,BCL2L2,BGN,BID,BIK,BIRC3,BMP2,CASP1,CASP4,CASP7,CAV1,CCND1,CD14,CD2,CD44,CD69,CDKN1A,CFLAR,DAP,DAP3,DCN,DNAJA1,DNAJC3,DPYD,EBP,EMP1,ETF1,FAS,FASLG,FEZ1,GADD45A,GADD45B,GCH1,GNA15,GPX1,HMOX1,HSPB1,IER3,IFITM3,IFNGR1,IL18,IL1A,IL1B,IL6,IRF1,KRT18,LGALS3,LMNA,LUM,MCL1,MMP2,PEA15,PLCB2,PMAIP1,PRF1,RELA,RETSAT,RHOB,RNASEL,SAT1,SLC20A1,SMAD7,SOD1,SOD2,TAP1,TIMP1,TNF,TNFRSF12A,TNFSF10,TSPO,VDAC2
HALLMARK_ANDROGEN_RESPONSE	0.0e+00	0.0e+00	4881	100	53	23467	ABCC4,ABHD2,ACSL3,ACTN1,ADRM1,AKT1,ALDH1A3,ANKH,B2M,B4GALT1,CCND1,CCND3,DBI,DHCR24,ELL2,ELOVL5,FKBP5,GNAI3,HERC3,HOMER2,IDI1,INPP4B,INSIG1,ITGAV,KRT19,KRT8,LMAN1,MAF,MYL12A,NCOA4,NDRG1,NGLY1,NKX3-1,PA2G4,PDLIM5,PMEPA1,PTK2B,RAB4A,RPS6KA3,SAT1,SCD,SGK1,SMS,SPDEF,SRF,STEAP4,TMEM50A,TNFAIP8,TPD52,TSC22D1,UAP1,UBE2J1,VAPA
HALLMARK_COAGULATION	0.0e+00	0.0e+00	4881	138	65	23467	A2M,ACOX2,ADAM9,ANXA1,APOC1,APOC2,ARF4,BMP1,C1QA,C1R,C1S,C2,C3,CAPN2,CD9,CFB,CFD,CFH,CFI,CTSB,CTSE,CTSH,CTSK,CTSO,DPP4,F10,F3,F8,FBN1,FN1,GNB2,GNG12,GP1BA,HRG,HTRA1,ITGA2,ITGB3,LAMP2,MAFF,MMP1,MMP10,MMP11,MMP2,MMP3,MMP7,MSRB2,OLR1,PDGFB,PECAM1,PEF1,PF4,PLAU,PLEK,PROS1,RABIF,S100A1,S100A13,SERPINA1,SIRT2,SPARC,TFPI2,THBD,THBS1,TIMP1,WDR1
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	4881	97	51	23467	B2M,BATF2,BST2,C1S,CASP1,CCRL2,CD47,CD74,CSF1,CXCL11,GBP2,GBP4,HLA-C,IFI27,IFI30,IFITM1,IFITM2,IFITM3,IL15,IL4R,IL7,IRF1,LAP3,LGALS3BP,LPAR6,LY6E,NCOA7,NMI,NUB1,OGFR,PARP9,PLSCR1,PROCR,PSMA3,PSMB8,PSMB9,PSME1,PSME2,RIPK2,RTP4,SAMD9L,SELL,SLC25A28,TAP1,TMEM140,TRIM14,TRIM21,TRIM26,UBA7,UBE2L6,WARS
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	4881	200	82	23467	AP3S1,APEX1,BUB3,CANX,CCT7,CDK4,COPS5,COX5A,CSTF2,CYC1,DEK,EEF1B2,EIF1AX,EIF2S1,EIF2S2,EIF3J,EIF4H,ETF1,EXOSC7,FAM120A,G3BP1,GSPT1,HDDC2,HPRT1,HSPD1,HSPE1,KARS,LDHA,MCM4,MCM6,MRPL23,MRPL9,NDUFAB1,NME1,NOP16,PA2G4,PABPC1,PABPC4,PCBP1,PCNA,PGK1,PHB,PHB2,POLE3,PPIA,PRDX4,PRPS2,PSMA1,PSMA2,PSMA4,PSMA6,PSMA7,PSMB2,PSMB3,PSMC4,PSMC6,PSMD14,PSMD8,PTGES3,RAD23B,RPL14,RPL18,RRP9,RSL1D1,RUVBL2,SLC25A3,SNRPA1,SNRPB2,SNRPD1,SNRPG,SRM,SRPK1,SSBP1,STARD7,TFDP1,TXNL4A,U2AF1,UBE2L3,USP1,VBP1,VDAC1,VDAC3
HALLMARK_UV_RESPONSE_UP	0.0e+00	0.0e+00	4881	158	69	23467	ABCB1,ACAA1,ALDOA,AP2S1,ASNS,ATP6V1F,BAK1,BID,BMP2,BSG,C4BPB,CCND3,CDKN2B,CHRNA5,CLTB,CREG1,CXCL2,CYB5B,CYB5R1,DGAT1,DNAJA1,DNAJB1,EIF2S3,EPCAM,EPHX1,FEN1,FKBP4,FMO1,FOS,GAL,GCH1,GRPEL1,HLA-F,HMOX1,HTR7,ICAM1,IL6,IRF1,JUNB,LYN,MAPK8IP2,MARK2,MGAT1,MRPL23,NAT1,NFKBIA,NPTX2,NPTXR,OLFM1,PDLIM3,POLE3,POLR2H,PPIF,PRKACA,PSMC3,RAB27A,RASGRP1,RHOB,RPN1,SLC25A4,SOD2,SPR,STIP1,TAP1,TARS,TFRC,TMBIM6,TST,TUBA4A
HALLMARK_PEROXISOME	0.0e+00	0.0e+00	4881	104	51	23467	ABCB1,ABCD1,ACAA1,ACOT8,ACSL1,ACSL4,ACSL5,ALDH1A1,ALDH9A1,BCL10,CADM1,CAT,CLN6,CLN8,CRAT,DHCR24,DHRS3,ELOVL5,EPHX2,ERCC1,FDPS,GNPAT,GSTK1,HRAS,HSD3B7,IDH1,IDH2,IDI1,ITGB1BP1,MVP,NUDT19,PABPC1,PEX13,PRDX1,PRDX5,RDH11,RETSAT,SCP2,SEMA3C,SLC23A2,SLC25A17,SLC25A19,SLC25A4,SLC35B2,SOD1,SOD2,STS,SULT2B1,TSPO,VPS4B,YWHAH
HALLMARK_CHOLESTEROL_HOMEOSTASIS	1.0e-07	2.0e-07	4881	74	36	23467	ACSS2,ACTG1,ALCAM,ANTXR2,ANXA13,ANXA5,CD9,CYP51A1,DHCR7,EBP,ERRFI1,ETHE1,FAM129A,FBXO6,FDFT1,FDPS,GPX8,GUSB,IDI1,LDLR,LGALS3,LPL,LSS,MAL2,MVD,NSDHL,PCYT2,PDK3,PLAUR,PLSCR1,PMVK,PNRC1,PPARG,S100A11,SCD,TNFRSF12A
HALLMARK_ANGIOGENESIS	2.0e-07	3.0e-07	4881	36	22	23467	COL3A1,COL5A2,CXCL6,ITGAV,LPL,LRPAP1,LUM,NRP1,OLR1,PDGFA,PF4,POSTN,PRG2,S100A4,SLCO2A1,SPP1,STC1,THBD,TIMP1,TNFRSF21,VCAN,VTN
HALLMARK_PI3K_AKT_MTOR_SIGNALING	3.0e-07	4.0e-07	4881	105	45	23467	ACTR2,ACTR3,AKT1,AP2M1,ARF1,ARHGDIA,ARPC3,CAB39,CALR,CDK4,CDKN1A,CFL1,CSNK2B,DAPP1,DUSP3,EGFR,FASLG,GNA14,GRB2,HRAS,IL2RG,IRAK4,LCK,MAPK9,MKNK1,MYD88,NFKBIB,NOD1,PFN1,PIK3R3,PPP1CA,PRKAG1,PRKCB,PTEN,RALB,RIPK1,RPS6KA1,RPS6KA3,SFN,SLA,SLC2A1,TBK1,TNFRSF1A,UBE2N,YWHAB
HALLMARK_PROTEIN_SECRETION	3.0e-07	5.0e-07	4881	96	42	23467	ABCA1,AP2M1,AP2S1,AP3S1,ARF1,ARFIP1,ATP1A1,ATP6V1B1,BET1,BNIP3,CAV2,CD63,CLN5,CLTA,COPE,CTSC,EGFR,GLA,GNAS,KRT18,LAMP2,LMAN1,M6PR,NAPA,NAPG,RAB14,RAB2A,RAB5A,RAB9A,RER1,RPS6KA3,SGMS1,SNX2,SOD1,STX12,TMED10,TMED2,TMX1,TPD52,VAMP3,VPS4B,YIPF6
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	6.0e-07	1.0e-06	4881	49	26	23467	CAT,ERCC2,FTL,GLRX,GLRX2,HHEX,HMOX2,IPCEF1,JUNB,LSP1,MBP,MGST1,MSRA,NDUFA6,NDUFB4,NQO1,PFKP,PRDX1,PRDX2,PRDX4,PRNP,SBNO2,SOD1,SOD2,SRXN1,TXN
HALLMARK_MYOGENESIS	1.9e-05	2.8e-05	4881	200	67	23467	ACSL1,ADAM12,ADCY9,AK1,ANKRD2,APLNR,APOD,ATP6AP1,BAG1,BDKRB2,BHLHE40,CACNA1H,CDH13,CDKN1A,CFD,COL15A1,COL1A1,COL3A1,COL4A2,COL6A2,COL6A3,COX7A1,CRAT,CRYAB,DAPK2,FDPS,GAA,GADD45B,GJA5,HBEGF,HSPB8,IGFBP7,ITGB4,KIFC3,LSP1,MAPK12,MB,MEF2A,MEF2C,MRAS,MYBPH,MYH11,MYL2,MYLPF,MYO1C,NQO1,OCEL1,PPP1R3C,PRNP,PTGIS,SCD,SGCD,SIRT2,SORBS1,SORBS3,SPARC,SPDEF,SPHK1,SYNGR2,TAGLN,TEAD4,TGFB1,TNNC1,TNNI2,TPM2,TPM3,VIPR1
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.9e-05	2.8e-05	4881	113	43	23467	ALDH18A1,ASNS,ATF4,ATP6V0D1,BAG3,BANF1,CALR,CCL2,DDIT4,DKC1,DNAJA4,DNAJC3,EDEM1,EIF2S1,EIF4A3,EIF4EBP1,EXOSC1,EXOSC2,EXOSC4,FKBP14,HERPUD1,HSPA5,IMP3,KDELR3,LSM1,LSM4,NOP14,PDIA5,PDIA6,POP4,RRP9,SEC11A,SERP1,SHC1,SLC1A4,SLC7A5,SPCS1,SRPRB,SSR1,TARS,WFS1,YIF1A,YWHAZ
HALLMARK_DNA_REPAIR	2.6e-05	3.7e-05	4881	150	53	23467	ADRM1,AK1,APRT,BCAP31,BOLA2,CDA,COX17,DAD1,DDB2,ELL,ERCC1,ERCC2,ERCC5,FEN1,GMPR2,GTF2A2,GTF2F1,GTF2H5,GUK1,HCLS1,HPRT1,MPG,MRPL40,NFX1,NME1,NT5C,PCNA,PNP,POLA1,POLA2,POLD3,POLD4,POLE4,POLH,POLR1D,POLR2H,POLR2K,POLR3GL,PRIM1,RBX1,RFC2,RFC5,SAC3D1,SDCBP,SEC61A1,SUPT4H1,SURF1,TAF12,TAF13,TAF9,TMED2,VPS28,ZNRD1
HALLMARK_UV_RESPONSE_DN	7.3e-05	1.0e-04	4881	144	50	23467	ADORA2B,ANXA2,ANXA4,BDNF,BHLHE40,CAV1,CELF2,COL1A1,COL1A2,COL3A1,COL5A2,DAB2,DBP,DLC1,EFEMP1,F3,FHL2,GCNT1,GJA1,GRK5,INPP4B,INSIG1,ITGB3,LDLR,MAPK14,MGLL,MT1E,NFKB1,NR3C1,NRP1,PDLIM5,PIK3R3,PMP22,PPARG,PRKCA,PTEN,PTGFR,RBPMS,RGS4,RND3,RUNX1,SDC2,SLC22A18,SMAD7,SNAI2,SYNE1,SYNJ2,TFPI,TGFBR2,VLDLR
HALLMARK_BILE_ACID_METABOLISM	1.9e-04	2.5e-04	4881	112	40	23467	ABCA1,ABCA6,ABCD1,ACSL1,ACSL5,ALDH1A1,ALDH9A1,AMACR,AQP9,BCAR3,CAT,CH25H,CYP7B1,CYP8B1,DHCR24,DIO2,EPHX2,GNPAT,GSTK1,HSD3B7,IDH1,IDH2,IDI1,LCK,NEDD4,NPC1,OPTN,PECR,PEX11G,PEX13,PEX16,PRDX5,RETSAT,SCP2,SLC22A18,SLC23A2,SLC27A5,SLC35B2,SOD1,SULT2B1
HALLMARK_HEME_METABOLISM	2.4e-04	3.2e-04	4881	200	63	23467	ACP5,ADIPOR1,AHSP,ALAD,ANK1,ARL2BP,ASNS,ATG4A,BLVRA,BLVRB,BSG,C3,CAST,CAT,CCND3,CLIC2,CTSB,CTSE,DCAF10,ELL2,ENDOD1,FBXO9,FOXJ2,GLRX5,GMPS,GYPC,HEBP1,HTATIP2,HTRA2,KAT2B,LAMP2,LMO2,LRP10,MARCH2,MBOAT2,MGST3,MKRN1,MOCOS,MPP1,NCOA4,NR3C1,OPTN,P4HA2,PDZK1IP1,PICALM,PQLC1,PRDX2,RAD23A,RCL1,RIOK3,RNF19A,SDCBP,SEC14L1,SLC10A3,SLC25A37,SLC2A1,SMOX,SYNJ1,TFRC,TMEM9B,UBAC1,UCP2,UROS
HALLMARK_TGF_BETA_SIGNALING	1.0e-02	1.3e-02	4881	54	19	23467	ACVR1,BCAR3,BMP2,ENG,FKBP1A,ID2,ID3,IFNGR2,JUNB,KLF10,PMEPA1,PPP1CA,RAB31,RHOA,SLC20A1,SMAD6,SMAD7,TGFB1,THBS1
HALLMARK_MYC_TARGETS_V2	2.3e-02	2.8e-02	4881	58	19	23467	CDK4,DCTPP1,FARSA,HSPD1,HSPE1,IMP4,MAP3K6,MCM4,NDUFAF4,NIP7,NOP16,NOP2,PA2G4,PES1,PHB,RABEPK,RCL1,RRP9,SRM
HALLMARK_APICAL_SURFACE	2.8e-02	3.4e-02	4881	44	15	23467	ADIPOR2,ATP6V0A4,ATP8B1,B4GALT1,CX3CL1,GATA3,HSPB1,IL2RB,IL2RG,LYN,PLAUR,RTN4RL1,SHROOM2,SRPX,SULF2

## Warning in .check_overlap(signature, gsets.obj$genesets): Only 0% of signature
## was found across genesets

5.30 ESCA

5.30.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits

5.30.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits

5.31 STAD

5.31.1 Up

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	4094	200	128	23467	ASF1B,ATAD2,AURKA,AURKB,BIRC5,BRCA1,BRCA2,BRMS1L,BUB1B,CCNB2,CCNE1,CDC20,CDC25A,CDC25B,CDCA3,CDCA8,CDK1,CDK4,CDKN2A,CDKN3,CENPE,CENPM,CHEK1,CHEK2,CIT,CKS1B,CKS2,CSE1L,DEK,DEPDC1,DIAPH3,DLGAP5,DNMT1,DONSON,DSCC1,E2F8,ESPL1,EZH2,GINS1,GINS4,H2AFX,H2AFZ,HELLS,HMGB2,HMGB3,HMMR,HNRNPD,ILF3,KIF18B,KIF22,KIF2C,KIF4A,KPNA2,LBR,LIG1,LMNB1,LUC7L3,LYAR,MAD2L1,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MELK,MKI67,MLH1,MSH2,MXD3,MYBL2,NASP,NCAPD2,NME1,NOP56,NUP107,NUP205,PAICS,PAN2,PLK1,PLK4,PNN,POLA2,POLD1,POLD2,POLE,POP7,PPP1R8,PRIM2,PRKDC,PRPS1,PSMC3IP,PTTG1,RACGAP1,RAD1,RAD51AP1,RAN,RANBP1,RFC3,RNASEH2A,RPA1,RPA2,RPA3,SMC3,SMC4,SMC6,SNRPB,SPAG5,SPC24,SPC25,SSRP1,STMN1,SUV39H1,TACC3,TBRG4,TIMELESS,TK1,TMPO,TOP2A,TRIP13,TUBG1,UBE2S,UBE2T,USP1,WDR90,WEE1,XPO1,ZW10
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	4094	200	115	23467	AURKA,AURKB,BIRC5,BRCA2,BUB1,BUB3,CBX1,CCNA2,CCNB2,CCNF,CDC20,CDC25A,CDC25B,CDC45,CDC6,CDC7,CDK1,CDK4,CDKN3,CENPA,CENPE,CENPF,CHAF1A,CHEK1,CHMP1A,CKS1B,CKS2,DBF4,DKC1,DTYMK,E2F1,E2F3,E2F4,ESPL1,EWSR1,EXO1,EZH2,FANCC,FBXO5,GINS2,H2AFX,H2AFZ,HMGB3,HMGN2,HMMR,HNRNPD,HNRNPU,HOXC10,ILF3,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF4A,KPNA2,KPNB1,LBR,LIG3,LMNB1,MAD2L1,MCM2,MCM3,MCM5,MCM6,MKI67,MNAT1,MTF2,MYBL2,NASP,NCL,NDC80,NEK2,NUP98,NUSAP1,ODC1,ODF2,PBK,PLK1,PLK4,POLA2,POLE,POLQ,PRC1,PRIM2,PTTG1,RACGAP1,RAD54L,RBL1,RBM14,RPA2,SFPQ,SLC7A5,SMARCC1,SMC2,SMC4,SNRPD1,SQLE,STIL,STMN1,SUV39H1,TACC3,TMPO,TOP1,TOP2A,TPX2,TRAIP,TROAP,TTK,UBE2C,UBE2S,UCK2,UPF1,XPO1
HALLMARK_MYC_TARGETS_V1	0.0e+00	0.0e+00	4094	200	94	23467	ABCE1,ACP1,BUB3,CAD,CANX,CBX3,CCNA2,CCT3,CCT4,CCT5,CDC20,CDC45,CDK2,CDK4,CLNS1A,CSTF2,DDX18,DDX21,DEK,DHX15,EIF2S2,EIF3B,EIF3J,EXOSC7,FBL,GLO1,GNL3,H2AFZ,HDAC2,HDGF,HNRNPA2B1,HNRNPD,HNRNPR,HNRNPU,HPRT1,HSP90AB1,HSPD1,HSPE1,IFRD1,ILF2,KPNA2,KPNB1,LSM7,MAD2L1,MCM2,MCM4,MCM5,MCM6,MCM7,MRPL23,MRPL9,NCBP1,NCBP2,NME1,NOP56,ODC1,POLD2,POLE3,PPM1G,PRPF31,PSMC6,PSMD1,PSMD14,PSMD3,PSMD7,RAN,RANBP1,RFC4,RNPS1,RPL22,RRP9,RUVBL2,SERBP1,SET,SF3B3,SMARCC1,SNRPA1,SNRPD1,SNRPD3,SNRPG,SRM,SSB,TARDBP,TCP1,TRIM28,TXNL4A,U2AF1,UBA2,USP1,VBP1,VDAC1,XPO1,XPOT,YWHAE
HALLMARK_MYC_TARGETS_V2	0.0e+00	0.0e+00	4094	58	40	23467	BYSL,CBX3,CDK4,DDX18,EXOSC5,FARSA,GNL3,GRWD1,HSPD1,HSPE1,IPO4,LAS1L,MCM4,MCM5,MPHOSPH10,MRTO4,MYBBP1A,NIP7,NOC4L,NOP2,NOP56,PES1,PLK1,PLK4,PPAN,PPRC1,PRMT3,PUS1,RRP12,RRP9,SLC19A1,SLC29A2,SRM,TBRG4,TCOF1,TFB2M,TMEM97,UTP20,WDR43,WDR74
HALLMARK_SPERMATOGENESIS	0.0e+00	4.0e-07	4094	135	50	23467	ACRV1,AGFG1,AKAP4,ALOX15,AURKA,BUB1,CCNB2,CDK1,CDKN3,CLGN,CLPB,CNIH2,COIL,CRISP2,DBF4,DDX25,DDX4,DMC1,DMRT1,EZH2,GAD1,GMCL1,GRM8,HIST1H1T,IFT88,KIF2C,LDHC,MAP7,MTNR1A,NAA11,NCAPH,NEK2,NPHP1,PARP2,PCSK1N,PGS1,PHKG2,PSMG1,RFC4,RPL39L,SCG3,STRBP,TEKT2,TKTL1,TOPBP1,TSN,TTK,TUBA3C,YBX2,ZC3H14
HALLMARK_MTORC1_SIGNALING	2.0e-07	1.3e-06	4094	200	65	23467	ARPC5L,AURKA,BUB1,CALR,CANX,CCNF,CCT6A,CDC25A,CYB5B,CYP51A1,DDIT3,DHCR24,DHCR7,DHFR,EBP,EEF1E1,EIF2S2,G6PD,HMBS,HPRT1,HSP90B1,HSPA9,HSPD1,HSPE1,IDH1,IFRD1,MCM2,MCM4,ME1,MTHFD2L,NFKBIB,NUFIP1,NUP205,PDAP1,PHGDH,PLK1,PNO1,PSMA3,PSMC6,PSMD12,PSMD13,PSMD14,PSME3,PSMG1,PSPH,RDH11,RPA1,RPN1,RRP9,SCD,SDF2L1,SLC1A5,SLC37A4,SLC7A5,SQLE,STIP1,TCEA1,TM7SF2,TMEM97,TOMM40,TRIB3,TUBG1,UCHL5,XBP1,YKT6
HALLMARK_DNA_REPAIR	7.0e-07	5.2e-06	4094	150	51	23467	AAAS,ADRM1,ARL6IP1,BCAM,BCAP31,BOLA2,CETN2,CLP1,COX17,CSTF3,DGUOK,FEN1,GTF3C5,HPRT1,ITPA,LIG1,NCBP2,NME1,POLA1,POLA2,POLB,POLD1,POLR1C,POLR2C,POLR2D,POLR2F,POLR2G,POLR2I,POLR2J,POLR3C,PRIM1,RAD51,RAE1,RFC3,RFC4,RFC5,RPA2,RPA3,SAC3D1,SF3A3,SNAPC4,SSRP1,STX3,TAF10,TAF1C,TAF6,UMPS,UPF3B,ZNF707,ZNRD1,ZWINT
HALLMARK_MITOTIC_SPINDLE	7.2e-06	4.5e-05	4094	199	60	23467	ALS2,ANLN,ARAP3,ARFIP2,ATG4B,AURKA,BIN1,BIRC5,BRCA2,BUB1,CCNB2,CDK1,CDK5RAP2,CENPE,CENPF,CENPJ,CEP72,CKAP5,CNTROB,DLGAP5,ECT2,EPB41,ESPL1,FBXO5,HDAC6,INCENP,KIF11,KIF15,KIF20B,KIF22,KIF2C,KIF3C,KIF4A,KIFAP3,KNTC1,KPTN,LMNB1,LRPPRC,MAP3K11,NCK2,NDC80,NEK2,NUSAP1,PIF1,PLK1,PPP4R2,PRC1,RACGAP1,SAC3D1,SASS6,SHROOM1,SHROOM2,SMC3,SMC4,TOP2A,TPX2,TTK,TUBD1,TUBGCP3,YWHAE
HALLMARK_UNFOLDED_PROTEIN_RESPONSE	1.4e-03	7.7e-03	4094	113	33	23467	BANF1,CALR,CEBPG,CKS1B,DCP1A,DCP2,DDX10,DKC1,EIF4EBP1,EXOSC1,EXOSC10,EXOSC2,EXOSC5,FUS,H2AFX,HSP90B1,HSPA9,HYOU1,IGFBP1,KHSRP,LSM4,NFYA,NOP14,NOP56,PDIA6,PREB,RRP9,SDAD1,SLC7A5,STC2,WIPI1,XBP1,XPOT
HALLMARK_UV_RESPONSE_UP	4.6e-03	2.3e-02	4094	158	41	23467	BID,BSG,CCK,CCNE1,CDC34,CDK2,CEBPG,CHKA,CLCN2,COL2A1,CYB5B,DDX21,EIF5,EPCAM,FEN1,FURIN,GGH,GLS,GRINA,H2AFX,HNRNPU,KLHDC3,MAPK8IP2,MARK2,MRPL23,NPTXR,PARP2,PDAP1,POLE3,POLG2,PPAT,PRKCD,PRPF3,RFC4,RPN1,SHOX2,SIGMAR1,STIP1,STK25,TYRO3,YKT6

5.31.2 Down

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	3060	200	124	23467	ADAR,APOL6,B2M,BANK1,BPGM,BST2,BTG1,C1R,C1S,CASP1,CASP4,CASP7,CCL2,CCL5,CD274,CD38,CD40,CD69,CD74,CD86,CDKN1A,CFH,CIITA,CMKLR1,CMPK2,CSF2RB,CXCL10,CXCL9,DDX58,DDX60,DHX58,EIF4E3,EPSTI1,FAS,FCGR1A,FGL2,FPR1,GBP4,GPR18,GZMA,HERC6,HIF1A,HLA-DMA,HLA-DQA1,HLA-DRB1,ICAM1,IDO1,IFI35,IFI44,IFI44L,IFIH1,IFIT1,IFIT2,IFIT3,IFITM2,IL10RA,IL15,IL15RA,IL18BP,IL2RB,IL7,IRF2,IRF4,IRF5,ISG20,ITGB7,JAK2,KLRK1,LAP3,LCP2,MARCH1,MT2A,MVP,NFKB1,NFKBIA,NLRC5,NMI,NOD1,OAS2,P2RY14,PARP14,PDE4B,PELI1,PFKP,PLA2G4A,PML,PSMB10,PSME1,PSME2,PTPN6,RIPK1,RSAD2,RTP4,SAMD9L,SAMHD1,SELP,SERPING1,SLAMF7,SLC25A28,SOCS3,SOD2,SP110,SPPL2A,SSPN,ST3GAL5,ST8SIA4,STAT2,STAT3,STAT4,TAPBP,TNFAIP2,TNFAIP3,TNFSF10,TRAFD1,TRIM14,TRIM21,TXNIP,UBE2L6,VAMP5,VCAM1,WARS,XAF1,ZBP1,ZNFX1
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	3060	200	115	23467	B2M,BCL10,CCL11,CCL13,CCL19,CCL2,CCL22,CCL4,CCL5,CCND2,CCR1,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD47,CD74,CD79A,CD80,CD86,CD8A,CD96,CFP,CRTAM,CSF1,CTSS,CXCL13,CXCL9,CXCR3,EGFR,ELANE,ETS1,FAS,FASLG,FCGR2B,FGR,FLNA,GBP2,GPR65,GZMA,GZMB,HCLS1,HIF1A,HLA-DMA,HLA-DMB,HLA-DOA,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,ICAM1,IFNG,IFNGR1,IGSF6,IL10,IL12B,IL12RB1,IL15,IL16,IL18,IL18RAP,IL27RA,IL2RA,IL2RB,IL2RG,IL7,IRF4,ITGAL,ITGB2,ITK,JAK2,KLRD1,LCK,LCP2,LIF,LTB,LY86,LYN,MAP4K1,NCF4,NCK1,NCR1,NLRP3,NOS2,PRF1,PRKCB,PSMB10,PTPN6,PTPRC,SIT1,SPI1,SRGN,ST8SIA4,STAB1,STAT4,TAPBP,TGFB1,TLR1,TLR2,TLR3,TLR6,TNF,TPD52,TRAT1,WARS,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	3060	200	107	23467	ABCA1,AHR,APLNR,AXL,BST2,BTG2,C3AR1,C5AR1,CALCRL,CCL17,CCL2,CCL22,CCL5,CCR7,CD14,CD40,CD48,CD55,CD69,CD82,CDKN1A,CHST2,CMKLR1,CSF1,CSF3R,CXCL10,CXCL9,CXCR6,CYBB,EBI3,EMP3,F3,FPR1,GNA15,GPR132,GPR183,HBEGF,HIF1A,HRH1,ICAM1,IFITM1,IFNAR1,IL10,IL10RA,IL12B,IL15,IL15RA,IL18,IL18R1,IL18RAP,IL1R1,IL2RB,IL7R,ITGA5,ITGB3,ITGB8,KCNA3,KLF6,LAMP3,LCK,LCP2,LIF,LPAR1,LTA,LYN,MARCO,MEFV,MMP14,MSR1,NFKB1,NFKBIA,NLRP3,NMI,NMUR1,OLR1,OSMR,P2RX7,PDE4B,PDPN,PIK3R5,PTAFR,PTGER2,PTGER4,PTGIR,PTPRE,RASGRP1,RGS1,RHOG,RNF144B,RTP4,SCARF1,SELL,SGMS2,SLAMF1,SLC31A2,SLC4A4,STAB1,TACR1,TAPBP,TLR1,TLR2,TLR3,TNFRSF1B,TNFRSF9,TNFSF10,TNFSF9,VIP
HALLMARK_TNFA_SIGNALING_VIA_NFKB	0.0e+00	0.0e+00	3060	200	95	23467	ABCA1,ATF3,BCL2A1,BCL6,BHLHE40,BIRC3,BTG1,BTG2,CCL2,CCL4,CCL5,CD44,CD69,CD80,CD83,CDKN1A,CEBPD,CFLAR,CSF1,CXCL10,DDX58,DNAJB4,DRAM1,DUSP1,DUSP2,EGR2,EGR3,ETS2,F3,FOS,FOSB,FOSL2,GADD45A,GADD45B,GEM,GPR183,HBEGF,ICAM1,IFIH1,IFIT2,IL12B,IL15RA,IL18,IL6ST,IL7R,JAG1,JUNB,KLF10,KLF2,KLF6,KLF9,LIF,LITAF,MCL1,NFE2L2,NFKB1,NFKBIA,NINJ1,NR4A2,NR4A3,OLR1,PDE4B,PDLIM5,PLEK,PLK2,PNRC1,PTGER4,PTPRE,PTX3,RCAN1,REL,RHOB,RNF19B,SAT1,SERPINB2,SERPINB8,SGK1,SIK1,SLC2A3,SOCS3,SOD2,STAT5A,TANK,TIPARP,TLR2,TNC,TNF,TNFAIP2,TNFAIP3,TNFAIP8,TNFRSF9,TNFSF9,TNIP1,TRAF1,ZFP36
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION	0.0e+00	0.0e+00	3060	200	93	23467	ABI3BP,ACTA2,ADAM12,ANPEP,BASP1,CALD1,CD44,CD59,CDH11,COL12A1,COL1A2,COL3A1,COL5A1,COL5A3,COL6A2,COL6A3,COL8A2,CXCL12,DAB2,DCN,DPYSL3,ECM1,ECM2,EFEMP2,EMP3,FAS,FBLN2,FBN1,FERMT2,FGF2,FLNA,FSTL1,FUCA1,GADD45A,GADD45B,GAS1,GEM,GJA1,GLIPR1,GREM1,HTRA1,IGFBP4,IL15,IL32,ITGA5,ITGAV,ITGB3,LAMA2,LAMA3,LGALS1,LOX,LOXL1,LUM,MATN2,MFAP5,MGP,MMP14,MMP2,MXRA5,MYL9,MYLK,NID2,NNMT,NOTCH2,PCOLCE,PDGFRB,PMP22,PRRX1,PTX3,QSOX1,RHOB,SAT1,SDC1,SFRP1,SGCB,SGCD,SLIT2,SLIT3,SNAI2,SPARC,SPP1,TAGLN,TGFB1,TGFBR3,THBS1,TIMP3,TNC,TNFAIP3,TPM1,VCAM1,VEGFC,VIM,WIPF1
HALLMARK_INTERFERON_ALPHA_RESPONSE	0.0e+00	0.0e+00	3060	97	55	23467	ADAR,B2M,BST2,C1S,CASP1,CD47,CD74,CMPK2,CSF1,CXCL10,DDX60,DHX58,EPSTI1,GBP2,GBP4,HERC6,HLA-C,IFI35,IFI44,IFI44L,IFIH1,IFIT2,IFIT3,IFITM1,IFITM2,IL15,IL7,IRF2,ISG20,LAMP3,LAP3,NCOA7,NMI,NUB1,PARP14,PARP9,PSME1,PSME2,RSAD2,RTP4,SAMD9,SAMD9L,SELL,SLC25A28,SP110,STAT2,TMEM140,TRAFD1,TRIM14,TRIM21,TRIM5,TXNIP,UBA7,UBE2L6,WARS
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	0.0e+00	3060	200	78	23467	ADAM19,AHNAK,AHR,AKAP2,ALCAM,BCL2,BHLHE40,CA2,CCND2,CCR4,CD44,CD48,CD79B,CD81,CD83,CD86,CDC42SE2,COL6A1,CSF1,CST7,CTLA4,CXCL10,CYFIP1,ECM1,EMP1,EOMES,FGL2,FLT3LG,GABARAPL1,GADD45B,GBP4,GLIPR2,GPR65,HOPX,ICOS,IFNGR1,IKZF2,IL10,IL10RA,IL18R1,IL2RA,IL2RB,IRF4,ITGA6,ITGAV,ITIH5,KLF6,LIF,LRRC8C,LTB,MUC1,MYO1C,MYO1E,PENK,PRKCH,PTGER2,RABGAP1L,RHOB,RHOH,RNH1,RORA,SELL,SELP,SERPINB6,SHE,SLC2A3,SMPDL3A,SNX9,SOCS2,SPP1,SYT11,TIAM1,TLR7,TNFRSF1B,TNFRSF9,TNFSF10,TRAF1,TWSG1
HALLMARK_P53_PATHWAY	0.0e+00	0.0e+00	3060	200	78	23467	ADA,AK1,ALOX15B,APP,ATF3,BAK1,BTG1,BTG2,CASP1,CCND2,CCNG1,CD81,CD82,CDH13,CDKN1A,CLCA2,CYFIP2,DDB2,DDIT4,DEF6,DGKA,DRAM1,EPHX1,ERCC5,FAS,FDXR,FOS,FUCA1,GADD45A,GM2A,HBEGF,HEXIM1,HMOX1,HSPA4L,ISCU,ITGB4,LIF,LRMP,MDM2,MKNK2,MXD4,NINJ1,NUPR1,PHLDA3,PITPNC1,PLK2,PLK3,POLH,PPM1D,PRMT2,PTPRE,RALGDS,RAP2B,RB1,RETSAT,RHBDF2,RNF19B,RPS27L,S100A4,SAT1,SDC1,STOM,TCN2,TGFB1,TM7SF3,TNFSF9,TOB1,TP53,TP63,TRAFD1,TXNIP,VDR,VWA5A,WWP1,XPC,ZBTB16,ZFP36L1,ZMAT3
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	3060	200	73	23467	ADAM9,APOBEC3G,C1QA,C1QC,C1R,C1S,CA2,CALM1,CASP1,CASP10,CASP4,CASP5,CASP7,CCL5,CD36,CD40LG,CD55,CD59,CDH13,CFH,CR1,CSRP1,CTSC,CTSO,CTSS,DOCK10,DOCK9,F3,F8,FCER1G,FCN1,GATA3,GNAI2,GNB4,GNG2,GNGT2,GRB2,GZMA,GZMB,GZMK,IRF2,ITGAM,JAK2,L3MBTL4,LAP3,LCK,LCP2,LGMN,LIPA,LTA4H,LYN,MMP14,OLR1,PIK3CA,PIK3CG,PIK3R5,PLA2G4A,PLA2G7,PLEK,PRCP,PRSS36,RASGRP1,RHOG,RNF4,SERPINB2,SERPING1,SH2B3,SPOCK2,TIMP2,TNFAIP3,WAS,ZEB1,ZFPM2
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	0.0e+00	3060	87	43	23467	A2M,ACVRL1,BAK1,CCR1,CD14,CD36,CD38,CD44,CSF1,CSF2RB,CSF3R,CXCL10,CXCL13,CXCL9,EBI3,FAS,GRB2,HMOX1,IFNAR1,IFNGR1,IL12RB1,IL15RA,IL18R1,IL1R1,IL2RA,IL2RG,IL6ST,IL7,ITGA4,ITGB3,LTB,OSMR,PDGFC,PIK3R5,SOCS3,STAM2,STAT2,STAT3,TGFB1,TLR2,TNF,TNFRSF1A,TNFRSF1B
HALLMARK_APOPTOSIS	0.0e+00	0.0e+00	3060	161	60	23467	ADD1,ANXA1,APP,ATF3,AVPR1A,BCL10,BCL2L2,BIRC3,BTG2,CASP1,CASP4,CASP7,CAV1,CCND2,CD14,CD2,CD38,CD44,CD69,CDKN1A,CFLAR,CYLD,DCN,DPYD,EGR3,EMP1,FAS,FASLG,FDXR,GADD45A,GADD45B,GNA15,GPX3,GSN,HGF,HMOX1,HSPB1,IFNGR1,IL18,ISG20,LUM,MCL1,MMP2,PDGFRB,PEA15,PLCB2,PRF1,RETSAT,RHOB,RNASEL,SAT1,SOD2,TGFBR3,TIMP2,TIMP3,TNF,TNFSF10,TSPO,TXNIP,VDAC2
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	3060	200	65	23467	ADAMDEC1,AKAP12,BIRC3,BPGM,BTC,C3AR1,CA2,CBR4,CCND2,CD37,CFH,CLEC4A,CMKLR1,CTSS,CXCL10,CXCR4,DOCK2,EMP1,ENG,EPB41L3,ETS1,F13A1,FBXO4,FCER1G,FUCA1,GNG11,GPNMB,GYPC,HBEGF,HSD11B1,IKZF1,IL10RA,IL2RG,IL7R,ITGB2,LAPTM5,LAT2,LCP1,LIF,LY96,MAFB,MAP4K1,MPZL2,MTMR10,NIN,PDCD1LG2,PECAM1,PEG3,PIGR,PRDM1,PRRX1,RABGAP1L,RELN,SDCCAG8,SPARCL1,SPON1,SPP1,TLR8,TMEM100,TNFAIP3,TNFRSF1B,TRAF1,TRIB2,TSPAN1,VWA5A
HALLMARK_MYOGENESIS	0.0e+00	0.0e+00	3060	200	64	23467	ABLIM1,ADAM12,AGL,AK1,APLNR,APP,BAG1,BHLHE40,CASQ1,CASQ2,CD36,CDH13,CDKN1A,CFD,CNN3,COL15A1,COL3A1,COL6A2,COL6A3,COX7A1,CRYAB,DES,DMPK,EFS,EIF4A2,FGF2,FHL1,FXYD1,GADD45B,GJA5,GPX3,GSN,HBEGF,HSPB2,HSPB8,IGF1,IGFBP7,ITGB4,LAMA2,LDB3,LPIN1,LSP1,MEF2A,MEF2C,MEF2D,MRAS,MYH11,MYLK,MYO1C,NCAM1,PDLIM7,PVALB,PYGM,RB1,SCHIP1,SGCD,SH3BGR,SOD3,SPARC,SSPN,ST5,TAGLN,TGFB1,TNNI2
HALLMARK_APICAL_JUNCTION	0.0e+00	0.0e+00	3060	200	57	23467	ACTB,ACTG1,ACTG2,ADAM15,ADAM9,AKT3,ALOX15B,ARHGEF6,CADM3,CD209,CD274,CD34,CD86,CDH11,CLDN15,CLDN5,CNTN1,EGFR,EVL,FBN1,FLNC,GNAI2,ICAM1,ICAM2,ITGA9,ITGB4,JAM3,LAMA3,LAYN,LIMA1,MADCAM1,MMP2,MPZL2,MSN,MYL9,NEGR1,NEXN,NLGN2,NLGN3,PARD6G,PARVA,PECAM1,PIK3R3,PTEN,PTPRC,RAC2,RSU1,SDC3,SLIT2,SYK,TRAF1,TSPAN4,VCAM1,VCL,VWF,YWHAH,ZYX
HALLMARK_HYPOXIA	0.0e+00	0.0e+00	3060	200	56	23467	AKAP12,ALDOA,ALDOB,AMPD3,ATF3,BCL2,BHLHE40,BTG1,CAV1,CDKN1A,CHST2,CITED2,COL5A1,CXCR4,DCN,DDIT4,DUSP1,EDN2,EGFR,ETS1,F3,FOS,FOSL2,GAPDH,GBE1,GPC4,GRHPR,GYS1,HMOX1,HS3ST1,ISG20,KLF6,LOX,LXN,MT1E,MT2A,NAGK,NDST1,NDST2,NR3C1,PAM,PFKP,PLAC8,PNRC1,PYGM,RORA,S100A4,SDC3,SLC2A3,SLC2A5,SRPX,TGFB3,TIPARP,TNFAIP3,TPD52,ZFP36
HALLMARK_UV_RESPONSE_DN	3.0e-07	8.0e-07	3060	144	42	23467	AKT3,AMPH,ATP2B4,BHLHE40,CAV1,CELF2,CITED2,COL1A2,COL3A1,DAB2,DLC1,DUSP1,F3,FHL2,GJA1,ITGB3,KCNMA1,KIT,LPAR1,LTBP1,MAP1B,MAP2K5,MGLL,MT1E,NFIB,NFKB1,NOTCH2,NR3C1,PDGFRB,PDLIM5,PIK3CD,PIK3R3,PMP22,PRKAR2B,PTEN,PTGFR,PTPRM,SCHIP1,SNAI2,SYNE1,TGFBR3,WDR37
HALLMARK_ESTROGEN_RESPONSE_EARLY	1.4e-06	4.1e-06	3060	200	51	23467	ABHD2,ABLIM1,AFF1,AMFR,BAG1,BCL11B,BCL2,BHLHE40,BLVRB,CBFA2T3,CD44,CXCL12,DLC1,EGR3,ENDOD1,FHL2,FKBP5,FOS,GAB2,GFRA1,GJA1,HSPB8,IGFBP4,IL6ST,JAK2,KLF10,KLK10,MAST4,MUC1,MYOF,NADSYN1,NBL1,OLFM1,OLFML3,PDLIM3,PGR,PRSS23,RAB31,RAPGEFL1,RASGRP1,SH3BP5,SLC1A1,SLC39A6,SYBU,THSD4,TIAM1,TIPARP,TOB1,TSKU,UGCG,ZNF185
HALLMARK_FATTY_ACID_METABOLISM	1.5e-06	4.1e-06	3060	158	43	23467	ACADS,ACO2,ADH7,ALDH3A1,ALDH9A1,ALDOA,AOC3,BLVRA,CA2,CBR3,CD1D,CD36,CPT2,DECR1,DLD,EPHX1,ETFDH,FMO1,GABARAPL1,GLUL,GRHPR,GSTZ1,HADHB,HIBCH,HPGD,IL4I1,LGALS1,LTC4S,MDH1,MGLL,NBN,PSME1,RETSAT,SDHA,SDHD,SERINC1,SUCLA2,SUCLG2,TP53INP2,UBE2L6,UROD,VNN1,YWHAH
HALLMARK_COAGULATION	4.3e-06	1.1e-05	3060	138	38	23467	A2M,ADAM9,ANXA1,C1QA,C1R,C1S,CAPN2,CFD,CFH,CSRP1,CTSE,CTSK,CTSO,F3,F8,FBN1,GSN,HTRA1,ISCU,ITGB3,LGMN,LTA4H,MMP14,MMP2,OLR1,P2RY1,PECAM1,PLEK,PRSS23,RAPGEF3,SERPINB2,SERPING1,SPARC,THBD,THBS1,TIMP3,VWF,WDR1
HALLMARK_ADIPOGENESIS	3.1e-04	6.9e-04	3060	200	44	23467	ABCA1,ACADS,ACO2,ALDH2,ALDOA,BCKDHA,BCL6,CAT,CD36,CMPK1,COL15A1,CPT2,CYP4B1,DECR1,DLD,DRAM2,ENPP2,FABP4,FZD4,G3BP2,GADD45A,GBE1,GPX3,HIBCH,HSPB8,IFNGR1,ITIH5,LAMA4,LTC4S,MGLL,MYLK,OMD,PHLDB1,PQLC3,REEP5,RETSAT,RNF11,SCP2,SPARCL1,SSPN,STAT5A,STOM,TANK,TOB1
HALLMARK_HEME_METABOLISM	3.1e-04	6.9e-04	3060	200	44	23467	ADD1,ANK1,ARL2BP,BLVRA,BLVRB,BPGM,BTG2,CA2,CAST,CAT,CDC27,CLIC2,CTSE,DCUN1D1,ENDOD1,ERMAP,EZH1,FBXO7,FECH,FOXJ2,GYPC,GYPE,ISCA1,KAT2B,LMO2,LRP10,MARCH2,MARCH8,MKRN1,MPP1,NCOA4,NFE2L1,NR3C1,OPTN,PDZK1IP1,PSMD9,RNF19A,SDCBP,TMEM9B,TNS1,TRAK2,TRIM58,UROD,YPEL5
HALLMARK_XENOBIOTIC_METABOLISM	3.1e-04	6.9e-04	3060	200	44	23467	ABCD2,ACO2,ACOX3,ACSM1,ADH7,ALDH2,ALDH3A1,ALDH9A1,AP4B1,ARPP19,BLVRB,CA2,CAT,CD36,CDO1,CYFIP2,CYP2C18,DHRS1,EPHX1,ESR1,ETFDH,ETS2,FAS,FMO1,GABARAPL1,HMOX1,HSD11B1,IGF1,IGFBP4,IL1R1,MT2A,NDRG2,NINJ1,PDLIM5,PINK1,PPARD,PSMB10,PTGDS,RETSAT,SERTAD1,SLC12A4,SLC46A3,TNFRSF1A,VNN1
HALLMARK_ANGIOGENESIS	3.8e-04	8.3e-04	3060	36	13	23467	APP,CCND2,COL3A1,FGFR1,FSTL1,ITGAV,JAG1,KCNJ8,LUM,OLR1,S100A4,SPP1,THBD
HALLMARK_PI3K_AKT_MTOR_SIGNALING	8.1e-04	1.7e-03	3060	105	26	23467	AP2M1,CAMK4,CDKN1A,CXCR4,DAPP1,DUSP3,EGFR,FASLG,GRB2,IL2RG,ITPR2,LCK,MAPK10,MKNK2,NCK1,NOD1,PIK3R3,PRKCB,PTEN,RIPK1,SLA,SMAD2,STAT2,TIAM1,TNFRSF1A,UBE2D3
HALLMARK_ESTROGEN_RESPONSE_LATE	1.1e-03	2.2e-03	3060	200	42	23467	ABHD2,AFF1,AGR2,AMFR,ATP2B4,BAG1,BCL2,BLVRB,CA2,CAV1,CD44,CXCL12,DUSP2,EGR3,EMP2,FKBP5,FOS,HSPA4L,HSPB8,IGFBP4,IL6ST,ISG20,JAK2,KLK10,MOCS2,MYOF,NBL1,OLFM1,PDLIM3,PGR,PRKAR2B,PRSS23,PTPN6,RAB31,RAPGEFL1,SGK1,TIAM1,TOB1,TPSAB1,TRIM29,TSTA3,ZFP36
HALLMARK_UV_RESPONSE_UP	2.1e-03	4.0e-03	3060	158	34	23467	ALDOA,ATF3,BAK1,BTG1,BTG2,CA2,CDO1,DLG4,EPHX1,FMO1,FOS,FOSB,GPX3,HLA-F,HMOX1,HTR7,ICAM1,IL6ST,JUNB,LYN,MGAT1,MMP14,NAT1,NFKBIA,NPTX2,NTRK3,OLFM1,PDLIM3,PLCL1,RAB27A,RASGRP1,RHOB,SOD2,UROD
HALLMARK_APICAL_SURFACE	8.9e-03	1.7e-02	3060	44	12	23467	AKAP7,APP,GAS1,GATA3,HSPB1,IL2RB,IL2RG,LYN,MAL,MDGA1,NTNG1,SRPX
HALLMARK_KRAS_SIGNALING_DN	1.7e-02	3.1e-02	3060	200	37	23467	AKR1B10,BTG2,CAMK1D,CCR8,CD207,CD40LG,CD80,CHST2,COPZ2,CPEB3,EDN2,IDUA,IFI44L,IFNG,IL12B,KCNMB1,KRT5,MEFV,MFSD6,MTHFR,MYOT,NR4A2,NUDT11,PDCD1,PTGFR,RSAD2,SERPINB2,SGK1,SIDT1,SLC16A7,SLC25A23,SMPX,SPRR3,SYNPO,TCL1A,TGM1,ZBTB16
HALLMARK_ANDROGEN_RESPONSE	3.3e-02	5.6e-02	3060	100	20	23467	ABHD2,ADAMTS1,AKAP12,APPBP2,B2M,ELK4,FKBP5,HERC3,HPGD,IQGAP2,ITGAV,MAF,MYL12A,NCOA4,PDLIM5,SAT1,SGK1,TNFAIP8,TPD52,UBE2J1
HALLMARK_CHOLESTEROL_HOMEOSTASIS	5.3e-02	8.8e-02	3060	74	15	23467	ACTG1,ALCAM,ANTXR2,ATF3,ATF5,AVPR1A,CPEB2,ETHE1,FAM129A,FBXO6,GPX8,JAG1,LGMN,PNRC1,TP53INP1

6 Functional analysis of common hits across tumor types

Finally, we will identify genes commonly up- or down-regulated across tumor types and perform functional enrichment on these genes as well. Genes up-regulated or down-regulated with FDR < 0.05 in more than 10 tumor types were examined with hypeR.

top.hits <- c("BUB1B", "MAD2L1", "CAPZB", "UBC",
              "CCT2", "ARIH1", "FBL", "FBXO5", "KIF18A",
              "LONP1", "PSMC1", "RAD51", "RANGAP1",
              "SEC13", "SMU1", "TUBB", "WDR5")

# Combine FDR values into a single vector for display
combined.fdr = sapply(result, function(i) i$WGD_Status_FDR, simplify = TRUE)
rownames(combined.fdr) = rownames(expression.overlap)
colnames(combined.fdr) = paste0("FDR_", colnames(combined.fdr))
fdr.fisher = apply(combined.fdr, 1,
                   function(p) as.numeric(sumlog(as.numeric(na.omit(p)))$p))


combined.estimate = sapply(result, function(i) i$WGD_Status_Estimate, simplify = TRUE)
rownames(combined.estimate) = rownames(expression.overlap)
colnames(combined.estimate) = paste0("Estimate_", colnames(combined.estimate))
estimate.avg = apply(combined.estimate, 1, mean, na.rm=TRUE) 

tumor.up.total = apply(combined.fdr < 0.05 & combined.estimate > 0, 1, sum, na.rm=TRUE)
tumor.down.total = apply(combined.fdr < 0.05 & combined.estimate < 0, 1, sum, na.rm=TRUE)

# Get lists of genes up or down-regulated in at least 10 tumor types
tumor.up.genes = names(tumor.up.total)[tumor.up.total > 10]
tumor.down.genes = names(tumor.down.total)[tumor.down.total > 10]
tumor.enrich.up = hypeR(tumor.up.genes, gs)
tumor.enrich.down = hypeR(tumor.down.genes, gs)

# Save tables
hyp_to_table(tumor.enrich.up, "Enrichment_Results/Genes_Up_InAtLeast_10_TumorTypes.txt")
hyp_to_table(tumor.enrich.down, "Enrichment_Results/Genes_Down_InAtLeast_10_TumorTypes.txt")

# Plot Results
label = names(estimate.avg)
label[!(label %in% top.hits)] = ""
df = data.frame(Gene = names(estimate.avg),
                Average_FC = estimate.avg,
                Combined_FDR = fdr.fisher,
                Combined_FDR_NegLog10 = -log10(fdr.fisher),
                Hits = ifelse(label == "", "black", "red"),
                label = label,
                combined.estimate, combined.fdr,
                Total_Upregulated_FDR05 = tumor.up.total,
                Total_Downregulated_FDR05 = tumor.down.total)
ggplot(df, aes(x=Average_FC, y=Combined_FDR_NegLog10, label=label)) + geom_point(aes(color=Hits)) +
    geom_label_repel(segment.color="red",
                     box.padding=0.5,
                     force=2) +
  theme_bw() +
    scale_color_manual(values=c("black", "red")) +
    xlab("Average Fold Change (Log2)") +
    ylab("Combined FDR q-value (-Log10)") +
    theme(legend.position="none")

write.table(df, "PanCan_Differential_Expression_Summary.txt", sep="\t", row.names = FALSE, quote = FALSE)

6.1 The table of the top enriched pathways among “up” genes

d = subset(tumor.enrich.up$data, fdr < 0.1)
print(kableExtra::kable(d, style = 'html', row.names = FALSE) %>% kable_styling(bootstrap_options = "striped") %>% scroll_box(width = "100%"))

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_E2F_TARGETS	0.0e+00	0.0e+00	147	200	36	23467	AURKB,BUB1B,CCNB2,CDC20,CDC25A,CDCA3,CDCA8,CDK1,CDK4,CHEK1,CHEK2,CKS2,DEPDC1,DLGAP5,ESPL1,GINS1,H2AFZ,HELLS,KIF18B,KIF2C,KIF4A,LIG1,MAD2L1,MCM6,MCM7,MELK,MYBL2,PLK1,POLD1,RANBP1,RNASEH2A,SPAG5,SSRP1,SUV39H1,TRIP13,UBE2S
HALLMARK_G2M_CHECKPOINT	0.0e+00	0.0e+00	147	200	36	23467	AURKB,BUB1,CBX1,CCNB2,CCNF,CDC20,CDC25A,CDK1,CDK4,CENPA,CHAF1A,CHEK1,CKS2,DKC1,ESPL1,EXO1,FANCC,H2AFZ,KIF11,KIF20B,KIF2C,KIF4A,LIG3,MAD2L1,MCM6,MYBL2,PLK1,PRC1,RAD54L,SMARCC1,STIL,SUV39H1,TPX2,TRAIP,TROAP,UBE2S
HALLMARK_MITOTIC_SPINDLE	0.0e+00	0.0e+00	147	199	13	23467	BUB1,CCNB2,CDK1,DLGAP5,ESPL1,KIF11,KIF20B,KIF2C,KIF4A,PLK1,PRC1,SASS6,TPX2
HALLMARK_MYC_TARGETS_V1	0.0e+00	1.0e-07	147	200	12	23467	CDC20,CDK4,GNL3,H2AFZ,MAD2L1,MCM6,MCM7,RANBP1,RNPS1,RRP9,SF3B3,SMARCC1
HALLMARK_MYC_TARGETS_V2	3.2e-05	3.2e-04	147	58	5	23467	CDK4,GNL3,LAS1L,PLK1,RRP9
HALLMARK_DNA_REPAIR	3.7e-04	3.1e-03	147	150	6	23467	FEN1,LIG1,POLD1,PRIM1,SSRP1,ZWINT
HALLMARK_MTORC1_SIGNALING	1.7e-03	1.2e-02	147	200	6	23467	BUB1,CCNF,CDC25A,PLK1,RRP9,TRIB3
HALLMARK_ESTROGEN_RESPONSE_LATE	8.6e-03	5.4e-02	147	200	5	23467	CDC20,KIF20A,PLAC1,RNASEH2A,STIL
HALLMARK_SPERMATOGENESIS	1.0e-02	5.8e-02	147	135	4	23467	BUB1,CCNB2,CDK1,KIF2C

6.2 The table of the top enriched pathways among “down” genes

d = subset(tumor.enrich.down$data, fdr < 0.1)
print(kableExtra::kable(d, style = 'html', row.names = FALSE) %>% kable_styling(bootstrap_options = "striped") %>% scroll_box(width = "100%"))

label	pval	fdr	signature	geneset	overlap	background	hits
HALLMARK_ALLOGRAFT_REJECTION	0.0e+00	0.0e+00	498	200	67	23467	CCL2,CCL22,CCL5,CCR2,CCR5,CD1D,CD2,CD247,CD28,CD3D,CD3E,CD3G,CD4,CD40,CD40LG,CD74,CD8A,CD8B,CD96,CFP,CRTAM,CTSS,CXCR3,ETS1,FAS,FASLG,FGR,GPR65,GZMA,HCLS1,HLA-DMA,HLA-DMB,HLA-DOB,HLA-DQA1,HLA-DRA,HLA-E,IFNGR1,IGSF6,IL12RB1,IL16,IL18RAP,IL2RB,IL7,IRF4,IRF8,ITGAL,ITGB2,ITK,JAK2,LCK,LCP2,LTB,LY86,LYN,NLRP3,PRF1,PRKCB,PTPRC,SIT1,SPI1,STAB1,STAT4,TLR1,TLR2,TRAT1,WAS,ZAP70
HALLMARK_INFLAMMATORY_RESPONSE	0.0e+00	0.0e+00	498	200	40	23467	AHR,APLNR,C3AR1,CCL2,CCL22,CCL5,CCR7,CD14,CD40,CD48,CD69,CDKN1A,CMKLR1,CXCR6,CYBB,FPR1,GPR132,GPR183,IFNAR1,IL10RA,IL18RAP,IL2RB,KCNA3,LCK,LCP2,LYN,NLRP3,NMUR1,PDE4B,PIK3R5,RASGRP1,RNF144B,SCARF1,SELL,SLAMF1,SLC31A2,STAB1,TLR1,TLR2,TNFRSF1B
HALLMARK_INTERFERON_GAMMA_RESPONSE	0.0e+00	0.0e+00	498	200	38	23467	APOL6,CASP1,CCL2,CCL5,CD40,CD69,CD74,CDKN1A,CFH,CIITA,CMKLR1,CSF2RB,DHX58,EIF4E3,FAS,FGL2,FPR1,GPR18,GZMA,HLA-DMA,HLA-DQA1,HLA-DRB1,IL10RA,IL2RB,IL7,IRF4,IRF8,ITGB7,JAK2,KLRK1,LCP2,P2RY14,PDE4B,SAMD9L,SELP,SERPING1,STAT4,TXNIP
HALLMARK_COMPLEMENT	0.0e+00	0.0e+00	498	200	27	23467	CASP1,CASP10,CCL5,CD40LG,CD59,CFH,CR1,CSRP1,CTSS,GNAI2,GNG2,GNGT2,GZMA,GZMK,ITGAM,JAK2,LCK,LCP2,LTF,LYN,PIK3CG,PIK3R5,PLEK,RASGRP1,SERPING1,SH2B3,WAS
HALLMARK_KRAS_SIGNALING_UP	0.0e+00	0.0e+00	498	200	24	23467	BIRC3,C3AR1,CD37,CFH,CMKLR1,CTSS,DOCK2,ETS1,IKZF1,IL10RA,IL33,IRF8,ITGB2,LAPTM5,LAT2,LCP1,PECAM1,PIGR,PRDM1,SERPINA3,TLR8,TNFRSF1B,TRAF1,VWA5A
HALLMARK_IL2_STAT5_SIGNALING	0.0e+00	1.0e-07	498	200	20	23467	AHR,CCR4,CD48,CDC42SE2,CST7,FGL2,GPR65,IFNGR1,IL10RA,IL2RB,IRF4,IRF8,LTB,PRKCH,RHOH,SELL,SELP,SHE,TNFRSF1B,TRAF1
HALLMARK_IL6_JAK_STAT3_SIGNALING	0.0e+00	3.0e-07	498	87	13	23467	A2M,ACVRL1,CD14,CSF2RB,FAS,IFNAR1,IFNGR1,IL12RB1,IL7,LTB,PIK3R5,TLR2,TNFRSF1B
HALLMARK_APOPTOSIS	1.9e-06	1.2e-05	498	161	15	23467	BIRC3,CASP1,CD14,CD2,CD69,CDKN1A,CYLD,DPYD,FAS,FASLG,IFNGR1,PLCB2,PRF1,RNASEL,TXNIP
HALLMARK_TNFA_SIGNALING_VIA_NFKB	1.0e-04	5.6e-04	498	200	14	23467	BIRC3,CCL2,CCL5,CD69,CDKN1A,ETS2,GPR183,KLF2,PDE4B,PLEK,TANK,TLR2,TNIP1,TRAF1
HALLMARK_INTERFERON_ALPHA_RESPONSE	2.2e-04	1.1e-03	498	97	9	23467	CASP1,CD74,DHX58,IL7,LPAR6,PARP9,SAMD9L,SELL,TXNIP
HALLMARK_P53_PATHWAY	1.2e-03	5.6e-03	498	200	12	23467	CASP1,CDKN1A,CYFIP2,DEF6,DGKA,ERCC5,FAS,LRMP,MDM2,TP63,TXNIP,VWA5A
HALLMARK_COAGULATION	9.4e-03	3.9e-02	498	138	8	23467	A2M,CFH,CFI,CSRP1,PECAM1,PLEK,RAPGEF3,SERPING1
HALLMARK_XENOBIOTIC_METABOLISM	1.1e-02	4.1e-02	498	200	10	23467	ABCD2,ALDH2,ALDH9A1,CYFIP2,ETS2,FAS,IRF8,NDRG2,SLC46A3,VNN1
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	2.0e-02	7.1e-02	498	49	4	23467	IPCEF1,LSP1,MBP,MSRA
HALLMARK_PI3K_AKT_MTOR_SIGNALING	2.5e-02	8.2e-02	498	105	6	23467	CDKN1A,FASLG,IRAK4,LCK,PRKCB,SLA

7 Session information

sessionInfo()

## R version 3.6.1 (2019-07-05)
## Platform: x86_64-apple-darwin15.6.0 (64-bit)
## Running under: macOS Mojave 10.14.6
## 
## Matrix products: default
## BLAS:   /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
## 
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
## 
## attached base packages:
## [1] grid      stats     graphics  grDevices datasets  utils     methods  
## [8] base     
## 
## other attached packages:
##  [1] limma_3.42.2         metap_1.3            ComplexHeatmap_2.2.0
##  [4] circlize_0.4.9       stringr_1.4.0        hypeR_1.3.01        
##  [7] ggrepel_0.8.2        kableExtra_1.1.0     knitr_1.28          
## [10] magrittr_1.5         ggplot2_3.3.0       
## 
## loaded via a namespace (and not attached):
##  [1] reactable_0.1.0.1   webshot_0.5.2       RColorBrewer_1.1-2 
##  [4] httr_1.4.1          numDeriv_2016.8-1.1 tools_3.6.1        
##  [7] R6_2.4.1            BiocGenerics_0.32.0 colorspace_1.4-1   
## [10] sn_1.6-1            GetoptLong_0.1.8    withr_2.2.0        
## [13] tidyselect_1.0.0    mnormt_1.5-7        compiler_3.6.1     
## [16] Biobase_2.46.0      rvest_0.3.5         xml2_1.3.2         
## [19] TFisher_0.2.0       sandwich_2.5-1      labeling_0.3       
## [22] scales_1.1.0        mvtnorm_1.1-0       readr_1.3.1        
## [25] digest_0.6.25       rmarkdown_2.1       pkgconfig_2.0.3    
## [28] htmltools_0.4.0     bibtex_0.4.2.2      plotrix_3.7-8      
## [31] highr_0.8           htmlwidgets_1.5.1   rlang_0.4.6        
## [34] GlobalOptions_0.1.1 rstudioapi_0.11     shape_1.4.4        
## [37] visNetwork_2.0.9    farver_2.0.3        zoo_1.8-8          
## [40] jsonlite_1.6.1      dplyr_0.8.5         zip_2.0.4          
## [43] Matrix_1.2-18       Rcpp_1.0.4.6        munsell_0.5.0      
## [46] lifecycle_0.2.0     stringi_1.4.6       multcomp_1.4-13    
## [49] yaml_2.2.1          gbRd_0.4-11         MASS_7.3-51.4      
## [52] plyr_1.8.6          parallel_3.6.1      crayon_1.3.4       
## [55] lattice_0.20-38     splines_3.6.1       msigdbr_7.0.1      
## [58] multtest_2.42.0     hms_0.5.3           pillar_1.4.4       
## [61] igraph_1.2.5        rjson_0.2.20        reshape2_1.4.4     
## [64] codetools_0.2-16    stats4_3.6.1        mutoss_0.1-12      
## [67] glue_1.4.0          evaluate_0.14       renv_0.10.0        
## [70] BiocManager_1.30.10 png_0.1-7           vctrs_0.2.4        
## [73] tweenr_1.0.1        Rdpack_0.11-1       gtable_0.3.0       
## [76] purrr_0.3.4         polyclip_1.10-0     clue_0.3-57        
## [79] assertthat_0.2.1    xfun_0.13           ggforce_0.3.1      
## [82] openxlsx_4.1.5      survival_3.1-8      viridisLite_0.3.0  
## [85] tibble_3.0.1        cluster_2.1.0       TH.data_1.0-10     
## [88] ellipsis_0.3.0