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Introduction

Our goals here are to run Logistic SuSiE on differential expression results from TCGA. We want to assess:

  1. If the resulting enrichment results look good/interpretable across multiple/concatenated gene sets
  2. Assess sensitivity to a range of p-value thresholds
  3. Evaluate the potential of the summary stat latent model
library(GSEABenchmarkeR)
library(EnrichmentBrowser)
library(tidyverse)
library(susieR)
library(DT)
source('code/load_gene_sets.R')
source('code/utils.R')
source('code/logistic_susie_vb.R')
source('code/logistic_susie_veb_boost.R')
source('code/latent_logistic_susie.R')

Setup

Load Gene Sets

loadGeneSetX uniformly formats gene sets and generates the \(X\) matrix We can source any gene set from WebGestaltR::listGeneSet()

gs_list <- WebGestaltR::listGeneSet()
gobp <- loadGeneSetX('geneontology_Biological_Process', min.size=50)  # just huge number of gene sets
gobp_nr <- loadGeneSetX('geneontology_Biological_Process_noRedundant', min.size=1)
gomf <- loadGeneSetX('geneontology_Molecular_Function', min.size=1)
kegg <- loadGeneSetX('pathway_KEGG', min.size=1)
reactome <- loadGeneSetX('pathway_Reactome', min.size=1)
wikipathway_cancer <- loadGeneSetX('pathway_Wikipathway_cancer', min.size=1)
wikipathway <- loadGeneSetX('pathway_Wikipathway', min.size=1)

genesets <- list(
  gobp=gobp,
  gobp_nr=gobp_nr,
  gomf=gomf,
  kegg=kegg,
  reactome=reactome,
  wikipathway_cancer=wikipathway_cancer,
  wikipathway=wikipathway
)
load('data/pbmc-purified/deseq2-pbmc-purified.RData')

convert_labels <- function(y, from='SYMBOL', to='ENTREZID'){
  hs <- org.Hs.eg.db::org.Hs.eg.db
  gene_symbols <- names(y)
  symbol2entrez <- AnnotationDbi::select(hs, keys=gene_symbols, columns=c(to, from), keytype = from)
  symbol2entrez <- symbol2entrez[!duplicated(symbol2entrez[[from]]),]
  symbol2entrez <- symbol2entrez[!is.na(symbol2entrez[[to]]),]
  symbol2entrez <- symbol2entrez[!is.na(symbol2entrez[[from]]),]
  rownames(symbol2entrez) <- symbol2entrez[[from]]
  ysub <- y[names(y) %in% symbol2entrez[[from]]]
  names(ysub) <- symbol2entrez[names(ysub),][[to]]
  return(ysub)
}


par(mfrow=c(1,1))
deseq$`CD19+ B` %>% .$padj %>% hist(main='CD19+B p-values')
Loading required package: DESeq2

Version Author Date
a2bdb56 karltayeb 2022-03-29

Fit logistic SuSiE

logistic_susie_driver = function(db, celltype, thresh){
  gs <- genesets[[db]]
  data <- deseq[[celltype]]
  
  # set up binary y
  y <- data %>%
    as.data.frame %>%
    rownames_to_column('gene') %>%
    dplyr::select(gene, padj) %>%
    filter(!is.na(padj)) %>%
    mutate(y = as.integer(padj < thresh)) %>%
    select(gene, y) %>%
    tibble2namedlist %>%
    convert_labels('ENSEMBL')
  
  u <- process_input(gs$X, y)  # subset to common genes
  vb.fit <- logistic.susie(  # fit model
    u$X, u$y, L=10, init.intercept = 0, verbose=1, maxit=100)

  # summarise results
  set.summary <- vb.fit$pip %>% 
    as_tibble(rownames='geneSet') %>%
    rename(pip=value) %>%
    mutate(
      top_component = apply(vb.fit$alpha, 2, which.max),
      active_set = top_component %in% vb.fit$sets$cs_index,
      top_component = paste0('L', top_component),
      cs = purrr::map(top_component, ~tryCatch(
        colnames(gs$X)[get(.x, vb.fit$sets$cs)], error = function(e) list())),
      in_cs = geneSet %in% cs,
      beta = colSums(vb.fit$mu * vb.fit$alpha),
      geneListSize = sum(u$y),
      geneSetSize = colSums(u$X),
      overlap = (u$y %*% u$X)[1,],
      nGenes = length(u$y),
      propSetInList = overlap / geneSetSize,
      oddsRatio = (overlap / (geneListSize - overlap)) / (
        (geneSetSize - overlap) / (nGenes - geneSetSize + overlap)),
    pValueHypergeometric = phyper(
      overlap-1, geneListSize, nGenes, geneSetSize, lower.tail= FALSE),
    db = db,
    celltype = celltype,
    thresh = thresh
    ) %>% left_join(gs$geneSet$geneSetDes)
  return(list(fit = vb.fit, set.summary=set.summary))
}

For each celltype, we fit logistic SuSiE using multiple gene set sources at various threshold of padj.

celltypes <- names(deseq)
pthresh <- c(0.1, 0.01, 0.001, 0.0001, 0.00001, 0.000001)
db_name <- names(genesets)
crossed <- cross3(db_name, celltypes, pthresh)

pbmc_res <- xfun::cache_rds({
  res <- purrr::map(crossed, purrr::lift_dl(logistic_susie_driver))
  for (i in 1:length(res)){  # save some space
    res[[i]]$fit$dat <- NULL
  }
  res
  }, file = 'logistic_susie_pbmc_genesets_pthresh.rds'
)

pbmc_res_set_summary <- dplyr::bind_rows(purrr::map(pbmc_res, ~ pluck(.x, 'set.summary')))

Summary functions

Just a few functions to help streamline looking at output

pval_focussed_table = function(thresh=1e-3, filter_db=NULL, filter_celltype=NULL, top.n=50){
  pbmc_res_set_summary %>%
  filter(
    case_when(
      is.null(filter_db) ~ TRUE,
      !is.null(filter_db) ~ db %in% filter_db
    ) &
    thresh == thresh &
    case_when(
      is.null(filter_celltype) ~ TRUE,
      !is.null(filter_celltype) ~ celltype %in% filter_celltype
    )
  )  %>%
  dplyr::arrange(celltype, db, pValueHypergeometric) %>%
  group_by(celltype, db) %>% slice(1:top.n) %>%
  select(celltype, db, geneSet, description, pip, top_component, oddsRatio, propSetInList, pValueHypergeometric) %>%
  mutate_at(vars(celltype, db), factor) %>%
  datatable(filter = 'top')
}

set_focussed_table = function(thresh=1e-3, filter_db=NULL, filter_celltype=NULL){
  pbmc_res_set_summary %>%
  filter(
    case_when(
      is.null(filter_db) ~ TRUE,
      !is.null(filter_db) ~ db %in% filter_db
    ) &
    thresh == 1e-3 &
    in_cs & active_set &
    case_when(
      is.null(filter_celltype) ~ TRUE,
      !is.null(filter_celltype) ~ celltype %in% filter_celltype
    )
  )  %>%
  dplyr::arrange(celltype, db, desc(pip)) %>%
  select(celltype, db, geneSet, description, pip, top_component, oddsRatio, propSetInList, pValueHypergeometric) %>%
  mutate_at(vars(celltype, geneSet, db), factor) %>%
  datatable(filter = 'top')
}

Results/Explore enrichments

Our goal is to assess 1. The quality of the gene set enrichments we get from each celltype - do reported gene set enrichments seem celltype specific/celltype relevant? - how much “interesting” marginal enrichment do we fail to capture in the multivariate model - how sensitive are we to the choice of pvalue threshold

Results

Lets take a look at what enrichment we’re getting across cell-types. ### Overview

pbmc_res_set_summary %>%
  filter(active_set, thresh==1e-4) %>%
  group_by(celltype, thresh, db, top_component) %>%
  chop(description) %>%
  select(celltype, db, thresh, cs, description) %>%
  knitr::kable()
Adding missing grouping variables: `top_component`
top_component celltype db thresh cs description
L5 CD19+ B gobp 1e-04 GO:0001775 cell activation
L5 CD19+ B gobp 1e-04 GO:0001775 cell activation involved in immune response
L5 CD19+ B gobp 1e-04 GO:0001775 leukocyte activation involved in immune response
L1 CD19+ B gobp 1e-04 GO:0002376 immune system process
L5 CD19+ B gobp 1e-04 GO:0001775 leukocyte activation
L3 CD19+ B gobp 1e-04 GO:0042773, GO:0042775 oxidative phosphorylation
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA processing
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA metabolic process
L2 CD19+ B gobp 1e-04 GO:0045047 protein targeting to ER
L2 CD19+ B gobp 1e-04 GO:0045047 establishment of protein localization to endoplasmic reticulum
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 regulation of mRNA processing
L3 CD19+ B gobp 1e-04 GO:0042773, GO:0042775 ATP synthesis coupled electron transport
L3 CD19+ B gobp 1e-04 GO:0042773, GO:0042775 mitochondrial ATP synthesis coupled electron transport
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 regulation of RNA splicing
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA splicing, via spliceosome
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 regulation of mRNA splicing, via spliceosome
L6 CD19+ B gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 alternative mRNA splicing, via spliceosome
L2 CD19+ B gobp 1e-04 GO:0045047 cotranslational protein targeting to membrane
L2 CD19+ B gobp 1e-04 GO:0045047 SRP-dependent cotranslational protein targeting to membrane
L1 CD19+ B gobp_nr 1e-04 GO:0002446, GO:0036230 neutrophil mediated immunity
L5 CD19+ B gobp_nr 1e-04 GO:0002764 immune response-regulating signaling pathway
L4 CD19+ B gobp_nr 1e-04 GO:0009123 nucleoside monophosphate metabolic process
L4 CD19+ B gobp_nr 1e-04 GO:0009123 nucleoside triphosphate metabolic process
L1 CD19+ B gobp_nr 1e-04 GO:0002446, GO:0036230 granulocyte activation
L2 CD19+ B gobp_nr 1e-04 GO:0070972 protein localization to endoplasmic reticulum
L1 CD19+ B gomf 1e-04 GO:0003723 RNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 transcription regulatory region sequence-specific DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 RNA polymerase II regulatory region sequence-specific DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 RNA polymerase II proximal promoter sequence-specific DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 proximal promoter sequence-specific DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 RNA polymerase II regulatory region DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 regulatory region nucleic acid binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 double-stranded DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 transcription regulatory region DNA binding
L3 CD19+ B gomf 1e-04 GO:0000977, GO:0000987, GO:0001012 sequence-specific double-stranded DNA binding
L7 CD19+ B gomf 1e-04 GO:0016651, GO:0016655, GO:0003954, GO:0008137, GO:0050136 oxidoreductase activity, acting on NAD(P)H
L7 CD19+ B gomf 1e-04 GO:0016651, GO:0016655, GO:0003954, GO:0008137, GO:0050136 oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor
L2 CD19+ B gomf 1e-04 GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific
L2 CD19+ B gomf 1e-04 GO:0000981 DNA-binding transcription factor activity
L6 CD19+ B gomf 1e-04 GO:0003735 structural constituent of ribosome
L7 CD19+ B gomf 1e-04 GO:0016651, GO:0016655, GO:0003954, GO:0008137, GO:0050136 NADH dehydrogenase activity
L7 CD19+ B gomf 1e-04 GO:0016651, GO:0016655, GO:0003954, GO:0008137, GO:0050136 NADH dehydrogenase (ubiquinone) activity
L7 CD19+ B gomf 1e-04 GO:0016651, GO:0016655, GO:0003954, GO:0008137, GO:0050136 NADH dehydrogenase (quinone) activity
L1 CD19+ B kegg 1e-04 hsa00190 Oxidative phosphorylation
L3 CD19+ B kegg 1e-04 hsa03010 Ribosome
L2 CD19+ B kegg 1e-04 hsa04640 Hematopoietic cell lineage
L1 CD19+ B kegg 1e-04 hsa00190 Parkinson disease
L8 CD19+ B reactome 1e-04 R-HSA-114608, R-HSA-76002 , R-HSA-76005 Hemostasis
L8 CD19+ B reactome 1e-04 R-HSA-114608, R-HSA-76002 , R-HSA-76005 Platelet degranulation
L1 CD19+ B reactome 1e-04 R-HSA-168256 Immune System
L8 CD19+ B reactome 1e-04 R-HSA-114608, R-HSA-76002 , R-HSA-76005 Platelet activation, signaling and aggregation
L8 CD19+ B reactome 1e-04 R-HSA-114608, R-HSA-76002 , R-HSA-76005 Response to elevated platelet cytosolic Ca2+
L3 CD19+ B reactome 1e-04 R-HSA-212436, R-HSA-74160 Generic Transcription Pathway
L3 CD19+ B reactome 1e-04 R-HSA-212436, R-HSA-74160 RNA Polymerase II Transcription
L3 CD19+ B reactome 1e-04 R-HSA-212436, R-HSA-74160 Gene expression (Transcription)
L5 CD19+ B reactome 1e-04 R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
L5 CD19+ B reactome 1e-04 R-HSA-983168 Class I MHC mediated antigen processing & presentation
L7 CD19+ B reactome 1e-04 R-HSA-72163, R-HSA-72172 mRNA Splicing - Major Pathway
L7 CD19+ B reactome 1e-04 R-HSA-72163, R-HSA-72172 mRNA Splicing
L7 CD19+ B reactome 1e-04 R-HSA-72163, R-HSA-72172 Processing of Capped Intron-Containing Pre-mRNA
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Signaling by the B Cell Receptor (BCR)
L4 CD19+ B reactome 1e-04 R-HSA-1428517, R-HSA-163200 The citric acid (TCA) cycle and respiratory electron transport
L4 CD19+ B reactome 1e-04 R-HSA-1428517, R-HSA-163200 Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
L4 CD19+ B reactome 1e-04 R-HSA-1428517, R-HSA-163200 Respiratory electron transport
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Metabolism of polyamines
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 p53-Dependent G1 DNA Damage Response
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 p53-Dependent G1/S DNA damage checkpoint
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 G1/S DNA Damage Checkpoints
L7 CD19+ B reactome 1e-04 R-HSA-72163, R-HSA-72172 Cleavage of Growing Transcript in the Termination Region
L7 CD19+ B reactome 1e-04 R-HSA-72163, R-HSA-72172 RNA Polymerase II Transcription Termination
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Ubiquitin-dependent degradation of Cyclin D1
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Ubiquitin-dependent degradation of Cyclin D
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Activation of NF-kappaB in B cells
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Regulation of Hypoxia-inducible Factor (HIF) by oxygen
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Cross-presentation of soluble exogenous antigens (endosomes)
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Regulation of Apoptosis
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Autodegradation of Cdh1 by Cdh1:APC/C
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 SCF-beta-TrCP mediated degradation of Emi1
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 APC/C:Cdc20 mediated degradation of Securin
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Cdc20:Phospho-APC/C mediated degradation of Cyclin A
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 APC/C:Cdc20 mediated degradation of mitotic proteins
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 APC:Cdc20 mediated degradation of cell cycle proteins prior to satisfation of the cell cycle checkpoint
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Vpu mediated degradation of CD4
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Vif-mediated degradation of APOBEC3G
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Regulation of activated PAK-2p34 by proteasome mediated degradation
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Cellular response to hypoxia
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Autodegradation of the E3 ubiquitin ligase COP1
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Regulation of ornithine decarboxylase (ODC)
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 AUF1 (hnRNP D0) binds and destabilizes mRNA
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Hh mutants that don’t undergo autocatalytic processing are degraded by ERAD
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Degradation of GLI1 by the proteasome
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Assembly of the pre-replicative complex
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Stabilization of p53
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Ubiquitin Mediated Degradation of Phosphorylated Cdc25A
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 p53-Independent DNA Damage Response
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 p53-Independent G1/S DNA damage checkpoint
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 FBXL7 down-regulates AURKA during mitotic entry and in early mitosis
L6 CD19+ B reactome 1e-04 R-HSA-69229 , R-HSA-75815 , R-HSA-1234176, R-HSA-169911 , R-HSA-180534 , R-HSA-180585 , R-HSA-211733 , R-HSA-349425 , R-HSA-69541 , R-HSA-69601 , R-HSA-69610 , R-HSA-69613 Negative regulation of NOTCH4 signaling
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 L13a-mediated translational silencing of Ceruloplasmin expression
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Formation of a pool of free 40S subunits
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 GTP hydrolysis and joining of the 60S ribosomal subunit
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 SRP-dependent cotranslational protein targeting to membrane
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Eukaryotic Translation Elongation
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Peptide chain elongation
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Viral mRNA Translation
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Selenocysteine synthesis
L2 CD19+ B reactome 1e-04 R-HSA-156842, R-HSA-156902, R-HSA-192823 Eukaryotic Translation Termination
L1 CD19+ B wikipathway_cancer 1e-04 WP619 Type II interferon signaling (IFNG)
L2 CD19+ B wikipathway 1e-04 WP111 Electron Transport Chain (OXPHOS system in mitochondria)
L1 CD19+ B wikipathway 1e-04 WP477 Cytoplasmic Ribosomal Proteins
L1 CD56+ NK gobp 1e-04 GO:0002376 immune system process
L4 CD56+ NK gobp 1e-04 GO:0006119 nucleoside monophosphate metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 purine nucleoside monophosphate metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 ribonucleoside monophosphate metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 purine ribonucleoside monophosphate metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 ATP metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 oxidative phosphorylation
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA processing
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA metabolic process
L4 CD56+ NK gobp 1e-04 GO:0006119 electron transport chain
L2 CD56+ NK gobp 1e-04 GO:0045047, GO:0072599, GO:0006614 protein targeting to ER
L2 CD56+ NK gobp 1e-04 GO:0045047, GO:0072599, GO:0006614 establishment of protein localization to endoplasmic reticulum
L4 CD56+ NK gobp 1e-04 GO:0006119 respiratory electron transport chain
L4 CD56+ NK gobp 1e-04 GO:0006119 ATP synthesis coupled electron transport
L4 CD56+ NK gobp 1e-04 GO:0006119 mitochondrial ATP synthesis coupled electron transport
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile
L5 CD56+ NK gobp 1e-04 GO:0006397, GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA splicing, via spliceosome
L2 CD56+ NK gobp 1e-04 GO:0045047, GO:0072599, GO:0006614 cotranslational protein targeting to membrane
L2 CD56+ NK gobp 1e-04 GO:0045047, GO:0072599, GO:0006614 SRP-dependent cotranslational protein targeting to membrane
L1 CD56+ NK gobp_nr 1e-04 GO:0002446, GO:0036230 neutrophil mediated immunity
L2 CD56+ NK gobp_nr 1e-04 GO:0006413 translational initiation
L3 CD56+ NK gobp_nr 1e-04 GO:0042110 leukocyte cell-cell adhesion
L4 CD56+ NK gobp_nr 1e-04 GO:0009123 nucleoside monophosphate metabolic process
L4 CD56+ NK gobp_nr 1e-04 GO:0009123 nucleoside triphosphate metabolic process
L4 CD56+ NK gobp_nr 1e-04 GO:0009123 ribonucleotide metabolic process
L1 CD56+ NK gobp_nr 1e-04 GO:0002446, GO:0036230 granulocyte activation
L3 CD56+ NK gobp_nr 1e-04 GO:0042110 T cell activation
L5 CD56+ NK gobp_nr 1e-04 GO:0042113 B cell activation
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 transcription regulatory region sequence-specific DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 RNA polymerase II regulatory region sequence-specific DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 proximal promoter sequence-specific DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 RNA polymerase II regulatory region DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 regulatory region nucleic acid binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 double-stranded DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 sequence-specific DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 transcription regulatory region DNA binding
L3 CD56+ NK gomf 1e-04 GO:0000976, GO:0000977, GO:0001012 sequence-specific double-stranded DNA binding
L2 CD56+ NK gomf 1e-04 GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific
L2 CD56+ NK gomf 1e-04 GO:0000981 DNA-binding transcription factor activity
L1 CD56+ NK gomf 1e-04 GO:0003735 structural constituent of ribosome
L1 CD56+ NK kegg 1e-04 hsa03010 Ribosome
L3 CD56+ NK kegg 1e-04 hsa04640 Hematopoietic cell lineage
L2 CD56+ NK kegg 1e-04 hsa05012 Parkinson disease
L1 CD56+ NK reactome 1e-04 R-HSA-168256 Immune System
L3 CD56+ NK reactome 1e-04 R-HSA-212436, R-HSA-74160 Generic Transcription Pathway
L3 CD56+ NK reactome 1e-04 R-HSA-212436, R-HSA-74160 RNA Polymerase II Transcription
L3 CD56+ NK reactome 1e-04 R-HSA-212436, R-HSA-74160 Gene expression (Transcription)
L5 CD56+ NK reactome 1e-04 R-HSA-8878171 Signaling by NOTCH
L6 CD56+ NK reactome 1e-04 R-HSA-983168, R-HSA-983169 Neddylation
L6 CD56+ NK reactome 1e-04 R-HSA-983168, R-HSA-983169 Antigen processing: Ubiquitination & Proteasome degradation
L6 CD56+ NK reactome 1e-04 R-HSA-983168, R-HSA-983169 Class I MHC mediated antigen processing & presentation
L5 CD56+ NK reactome 1e-04 R-HSA-8878171 Transcriptional regulation by RUNX1
L4 CD56+ NK reactome 1e-04 R-HSA-163200 The citric acid (TCA) cycle and respiratory electron transport
L4 CD56+ NK reactome 1e-04 R-HSA-163200 Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
L4 CD56+ NK reactome 1e-04 R-HSA-163200 Respiratory electron transport
L5 CD56+ NK reactome 1e-04 R-HSA-8878171 RUNX1 regulates transcription of genes involved in differentiation of HSCs
L2 CD56+ NK reactome 1e-04 R-HSA-156842, R-HSA-156902 Formation of a pool of free 40S subunits
L2 CD56+ NK reactome 1e-04 R-HSA-156842, R-HSA-156902 Eukaryotic Translation Elongation
L2 CD56+ NK reactome 1e-04 R-HSA-156842, R-HSA-156902 Peptide chain elongation
L2 CD56+ NK reactome 1e-04 R-HSA-156842, R-HSA-156902 Viral mRNA Translation
L2 CD56+ NK reactome 1e-04 R-HSA-156842, R-HSA-156902 Eukaryotic Translation Termination
L2 CD56+ NK wikipathway 1e-04 WP111 Electron Transport Chain (OXPHOS system in mitochondria)
L2 CD56+ NK wikipathway 1e-04 WP111 Oxidative phosphorylation
L1 CD56+ NK wikipathway 1e-04 WP477 Cytoplasmic Ribosomal Proteins
L1 T cell gobp 1e-04 GO:0001775 cell activation
L5 T cell gobp 1e-04 GO:0002376 immune system process
L5 T cell gobp 1e-04 GO:0002376 immune response
L1 T cell gobp 1e-04 GO:0001775 leukocyte activation
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of biological process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of biological process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of cellular process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 apoptotic process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 cell death
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of cell death
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 programmed cell death
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of apoptotic process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of programmed cell death
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 apoptotic signaling pathway
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of cell death
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of apoptotic process
L3 T cell gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of programmed cell death
L2 T cell gobp 1e-04 GO:0006119 oxidative phosphorylation
L4 T cell gobp 1e-04 GO:0070972, GO:0045047, GO:0072599, GO:0006614 protein localization to endoplasmic reticulum
L4 T cell gobp 1e-04 GO:0070972, GO:0045047, GO:0072599, GO:0006614 protein targeting to ER
L4 T cell gobp 1e-04 GO:0070972, GO:0045047, GO:0072599, GO:0006614 establishment of protein localization to endoplasmic reticulum
L2 T cell gobp 1e-04 GO:0006119 ATP synthesis coupled electron transport
L2 T cell gobp 1e-04 GO:0006119 mitochondrial ATP synthesis coupled electron transport
L4 T cell gobp 1e-04 GO:0070972, GO:0045047, GO:0072599, GO:0006614 cotranslational protein targeting to membrane
L4 T cell gobp 1e-04 GO:0070972, GO:0045047, GO:0072599, GO:0006614 SRP-dependent cotranslational protein targeting to membrane
L1 T cell gobp_nr 1e-04 GO:0002446, GO:0036230 neutrophil mediated immunity
L1 T cell gobp_nr 1e-04 GO:0002446, GO:0036230 granulocyte activation
L2 T cell gobp_nr 1e-04 GO:0042110 T cell activation
L3 T cell gobp_nr 1e-04 GO:0070972 protein localization to endoplasmic reticulum
L1 T cell gomf 1e-04 GO:0005515 protein binding
L1 T cell kegg 1e-04 hsa05010 Alzheimer disease
L1 T cell reactome 1e-04 R-HSA-6798695 Neutrophil degranulation
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 L13a-mediated translational silencing of Ceruloplasmin expression
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 Eukaryotic Translation Initiation
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 Formation of a pool of free 40S subunits
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 Cap-dependent Translation Initiation
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 Peptide chain elongation
L2 T cell reactome 1e-04 R-HSA-156827, R-HSA-72706 Viral mRNA Translation
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 transport
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 exocytosis
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 vesicle-mediated transport
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 regulated exocytosis
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 establishment of localization
L1 CD14+ Monocyte gobp 1e-04 GO:0001775, GO:0045321 cell activation
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 immune system process
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 immune response
L4 CD14+ Monocyte gobp 1e-04 GO:0016192 neutrophil activation
L1 CD14+ Monocyte gobp 1e-04 GO:0001775, GO:0045321 leukocyte activation
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 response to stimulus
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 response to stress
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of biological process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of biological process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of cellular process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of catalytic activity
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 cellular response to stimulus
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 cellular response to chemical stimulus
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of cellular process
L6 CD14+ Monocyte gobp 1e-04 GO:0006412, GO:0006518, GO:0043043 cellular amide metabolic process
L6 CD14+ Monocyte gobp 1e-04 GO:0006412, GO:0006518, GO:0043043 amide biosynthetic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 response to organic substance
L6 CD14+ Monocyte gobp 1e-04 GO:0006412, GO:0006518, GO:0043043 translation
L6 CD14+ Monocyte gobp 1e-04 GO:0006412, GO:0006518, GO:0043043 peptide metabolic process
L6 CD14+ Monocyte gobp 1e-04 GO:0006412, GO:0006518, GO:0043043 peptide biosynthetic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 apoptotic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 programmed cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of apoptotic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of apoptotic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of programmed cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of programmed cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 negative regulation of cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 apoptotic signaling pathway
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of cell death
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of apoptotic process
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 positive regulation of programmed cell death
L3 CD14+ Monocyte gobp 1e-04 GO:0006119 oxidative phosphorylation
L5 CD14+ Monocyte gobp 1e-04 GO:0006915, GO:0008219, GO:0010941, GO:0012501, GO:0042981, GO:0043067 regulation of apoptotic signaling pathway
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA processing
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA metabolic process
L2 CD14+ Monocyte gobp 1e-04 GO:0045047, GO:0006613, GO:0006614 protein localization to endoplasmic reticulum
L2 CD14+ Monocyte gobp 1e-04 GO:0045047, GO:0006613, GO:0006614 protein targeting to ER
L2 CD14+ Monocyte gobp 1e-04 GO:0045047, GO:0006613, GO:0006614 establishment of protein localization to endoplasmic reticulum
L3 CD14+ Monocyte gobp 1e-04 GO:0006119 ATP synthesis coupled electron transport
L3 CD14+ Monocyte gobp 1e-04 GO:0006119 mitochondrial ATP synthesis coupled electron transport
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile
L7 CD14+ Monocyte gobp 1e-04 GO:0008380, GO:0000375, GO:0000377, GO:0000398 mRNA splicing, via spliceosome
L2 CD14+ Monocyte gobp 1e-04 GO:0045047, GO:0006613, GO:0006614 cotranslational protein targeting to membrane
L2 CD14+ Monocyte gobp 1e-04 GO:0045047, GO:0006613, GO:0006614 SRP-dependent cotranslational protein targeting to membrane
L1 CD14+ Monocyte gobp_nr 1e-04 GO:0036230 neutrophil mediated immunity
L4 CD14+ Monocyte gobp_nr 1e-04 GO:0002521, GO:0042110 leukocyte differentiation
L4 CD14+ Monocyte gobp_nr 1e-04 GO:0002521, GO:0042110 regulation of leukocyte activation
L5 CD14+ Monocyte gobp_nr 1e-04 GO:0006397, GO:0008380 mRNA processing
L2 CD14+ Monocyte gobp_nr 1e-04 GO:0006413 translational initiation
L6 CD14+ Monocyte gobp_nr 1e-04 GO:0070972, GO:0090150 protein targeting
L5 CD14+ Monocyte gobp_nr 1e-04 GO:0006397, GO:0008380 RNA splicing
L3 CD14+ Monocyte gobp_nr 1e-04 GO:0009123 nucleoside monophosphate metabolic process
L3 CD14+ Monocyte gobp_nr 1e-04 GO:0009123 nucleoside triphosphate metabolic process
L1 CD14+ Monocyte gobp_nr 1e-04 GO:0036230 granulocyte activation
L4 CD14+ Monocyte gobp_nr 1e-04 GO:0002521, GO:0042110 T cell activation
L6 CD14+ Monocyte gobp_nr 1e-04 GO:0070972, GO:0090150 protein localization to endoplasmic reticulum
L6 CD14+ Monocyte gobp_nr 1e-04 GO:0070972, GO:0090150 establishment of protein localization to membrane
L5 CD14+ Monocyte gobp_nr 1e-04 GO:0006397, GO:0008380 regulation of mRNA metabolic process
L4 CD14+ Monocyte gobp_nr 1e-04 GO:0002521, GO:0042110 regulation of hemopoiesis
L1 CD14+ Monocyte gomf 1e-04 GO:0003723 RNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 transcription regulatory region sequence-specific DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 RNA polymerase II regulatory region sequence-specific DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 RNA polymerase II proximal promoter sequence-specific DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 proximal promoter sequence-specific DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 RNA polymerase II regulatory region DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 sequence-specific DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 transcription regulatory region DNA binding
L3 CD14+ Monocyte gomf 1e-04 GO:0000977, GO:0001012 sequence-specific double-stranded DNA binding
L6 CD14+ Monocyte gomf 1e-04 GO:0050839, GO:0045296 cell adhesion molecule binding
L6 CD14+ Monocyte gomf 1e-04 GO:0050839, GO:0045296 cadherin binding
L5 CD14+ Monocyte gomf 1e-04 GO:0016655, GO:0008137, GO:0050136 oxidoreductase activity, acting on NAD(P)H
L5 CD14+ Monocyte gomf 1e-04 GO:0016655, GO:0008137, GO:0050136 oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor
L2 CD14+ Monocyte gomf 1e-04 GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific
L2 CD14+ Monocyte gomf 1e-04 GO:0000981 DNA-binding transcription factor activity
L4 CD14+ Monocyte gomf 1e-04 GO:0003735 structural constituent of ribosome
L5 CD14+ Monocyte gomf 1e-04 GO:0016655, GO:0008137, GO:0050136 NADH dehydrogenase activity
L5 CD14+ Monocyte gomf 1e-04 GO:0016655, GO:0008137, GO:0050136 NADH dehydrogenase (ubiquinone) activity
L5 CD14+ Monocyte gomf 1e-04 GO:0016655, GO:0008137, GO:0050136 NADH dehydrogenase (quinone) activity
L1 CD14+ Monocyte kegg 1e-04 hsa03010 Ribosome
L2 CD14+ Monocyte kegg 1e-04 hsa05012 Parkinson disease
L1 CD14+ Monocyte reactome 1e-04 R-HSA-6798695 Neutrophil degranulation
L6 CD14+ Monocyte reactome 1e-04 R-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
L5 CD14+ Monocyte reactome 1e-04 R-HSA-72163, R-HSA-72172 mRNA Splicing - Major Pathway
L5 CD14+ Monocyte reactome 1e-04 R-HSA-72163, R-HSA-72172 mRNA Splicing
L5 CD14+ Monocyte reactome 1e-04 R-HSA-72163, R-HSA-72172 Processing of Capped Intron-Containing Pre-mRNA
L2 CD14+ Monocyte reactome 1e-04 R-HSA-72766 Translation
L3 CD14+ Monocyte reactome 1e-04 R-HSA-163200 Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
L3 CD14+ Monocyte reactome 1e-04 R-HSA-163200 Respiratory electron transport
L7 CD14+ Monocyte reactome 1e-04 R-HSA-379726 Mitochondrial tRNA aminoacylation
L2 CD14+ Monocyte wikipathway 1e-04 WP111 Electron Transport Chain (OXPHOS system in mitochondria)
L1 CD14+ Monocyte wikipathway 1e-04 WP477 Cytoplasmic Ribosomal Proteins
L1 CD34+ gobp 1e-04 GO:0001775 cell activation
L1 CD34+ gobp 1e-04 GO:0001775 leukocyte activation
L3 CD34+ gobp 1e-04 GO:0006119 oxidative phosphorylation
L4 CD34+ gobp 1e-04 GO:0016032, GO:0044403, GO:0044419 viral process
L4 CD34+ gobp 1e-04 GO:0016032, GO:0044403, GO:0044419 symbiont process
L4 CD34+ gobp 1e-04 GO:0016032, GO:0044403, GO:0044419 interspecies interaction between organisms
L2 CD34+ gobp 1e-04 GO:0006613, GO:0006614 protein targeting to ER
L2 CD34+ gobp 1e-04 GO:0006613, GO:0006614 establishment of protein localization to endoplasmic reticulum
L3 CD34+ gobp 1e-04 GO:0006119 ATP synthesis coupled electron transport
L3 CD34+ gobp 1e-04 GO:0006119 mitochondrial ATP synthesis coupled electron transport
L2 CD34+ gobp 1e-04 GO:0006613, GO:0006614 cotranslational protein targeting to membrane
L2 CD34+ gobp 1e-04 GO:0006613, GO:0006614 SRP-dependent cotranslational protein targeting to membrane
L1 CD34+ gobp_nr 1e-04 GO:0002446, GO:0036230 neutrophil mediated immunity
L2 CD34+ gobp_nr 1e-04 GO:0006413 translational initiation
L1 CD34+ gobp_nr 1e-04 GO:0002446, GO:0036230 granulocyte activation
L2 CD34+ gomf 1e-04 GO:0005515 protein binding
L1 CD34+ gomf 1e-04 GO:0003735 structural constituent of ribosome
L1 CD34+ kegg 1e-04 hsa00190 Oxidative phosphorylation
L2 CD34+ kegg 1e-04 hsa03010 Ribosome
L1 CD34+ kegg 1e-04 hsa00190 Parkinson disease
L2 CD34+ reactome 1e-04 R-HSA-6798695 Innate Immune System
L2 CD34+ reactome 1e-04 R-HSA-6798695 Neutrophil degranulation
L4 CD34+ reactome 1e-04 R-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
L3 CD34+ reactome 1e-04 R-HSA-163200 Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
L3 CD34+ reactome 1e-04 R-HSA-163200 Respiratory electron transport
L1 CD34+ reactome 1e-04 R-HSA-72764 Eukaryotic Translation Elongation
L1 CD34+ reactome 1e-04 R-HSA-72764 Peptide chain elongation
L1 CD34+ reactome 1e-04 R-HSA-72764 Eukaryotic Translation Termination
L2 CD34+ wikipathway 1e-04 WP111 Electron Transport Chain (OXPHOS system in mitochondria)
L1 CD34+ wikipathway 1e-04 WP477 Cytoplasmic Ribosomal Proteins 
knitr::knit_exit()