Skip to main content

Table 5 The ten immune-related pathways significantly up-regulated in viremic patients versus BDLs

From: Transcriptome analysis of primary monocytes from HIV-positive patients with differential responses to antiretroviral therapy

Gene set name GS size NOM p-val FDR Core enrichment genes contributing to the pathway enrichment
KEGG_INTESTINAL_IMMUNE_ NETWORK_FOR_IGA_PRODUCTION 48 0.00 0.014 HLA-DRB5, HLA-DRB1, LTBR, ITGB7, CD40, TNFSF13, HLA-DOA, CCR9
KEGG_ANTIGEN_PROCESSING_ AND_PRESENTATION 88 0.00 0.016 HLA-DRB5, HLA-DRB1, CD4, HLA-C, IFI30, NFYC, TAPBP, HSPA1B, CD74, HLA-DOA, TAP2, HLA-E, PDIA3, PSME1, HSP90AB1, RFX5, CALR, KIR2DS5, HLA-F
KEGG_ADHERENS_JUNCTION 73 0.00 0.016 ACTN4, EP300, TCF7L2, PTPN6, IQGAP1, CSNK2B, SRC, FYN, RAC1, CSNK2A2, WASF2, PVRL4, PTPN1, BAIAP2, CTNNB1, PVRL2, ACTB
KEGG_HEMATOPOIETIC_CELL_ LINEAGE 87 0.00 0.016 HLA-DRB5, HLA-DRB1, FLT3LG, CD4, TNF, CD37, IL1B, CD9, CD36, EPOR, ANPEP, CD1A, CD19, ITGA2B, FCER2, CD1D, FCGR1A
KEGG_CELL_ADHESION_ MOLECULES_CAMS 134 0.00 0.017 HLA-DRB5, HLA-DRB1, ITGAL, ITGB7, CD40, CD4, HLA-C, SELL, PECAM1, SPN, HLA-DOA, ICAM2, HLA-E, ICAM3, CLDN3, PVRL2, JAM3, HLA-F, CD28, CLDN18, PVR, CD99, ICOS, PDCD1LG2, CD80, CLDN5, NEO1, PDCD1, ITGAM, PTPRF, HLA-DRA, CNTN2, HLA-B, CD58, NLGN3, CTLA4, ITGA4, SIGLEC1
KEGG_LYSOSOME 119 0.00 0.023 ARSA, ACP2, SGSH, CTSZ, MCOLN1, CTSA, CTSD, SORT1, FUCA1, MAN2B1, GBA, TCIRG1, NAPSA, IDUA, NAGPA, M6PR, ATP6V0D1, NEU1, ACP5, GGA1, LAPTM5, CD63, AP1S1, AP3B1, AP3D1, NAGA, CLN3, IDS, TPP1
KEGG_NEUROTROPHIN_ SIGNALING_PATHWAY 125 0.00 0.025 YWHAE, ARHGDIA, RPS6KA4, SH2B2, MAP2K2, MAPKAPK2, MAPK7, SORT1, CSK, RELA, SHC1, PIK3CG, KIDINS220, CRK, IRAK1, BAX, SH2B3, RAC1, MAP2K5, AKT1, CALM1, MAP3K3, MAPK9, ABL1, RPS6KA3, SH2B1, IRS1, RAF1, HRAS, MAPK14
KEGG_FC_GAMMA_R_MEDIATED_PHAGOCYTOSIS 92 0.00 0.029 MARCKSL1, NCF1, PIP5K1C, VASP, HCK, PIK3CG, DNM2, CRK, SYK, ARPC4, ARPC1A, SPHK1, RAC1, ARPC5L, LYN, AKT1, WASF2, VAV1, ARPC1B, LOC653888, FCGR1A, RAF1, PRKCA, GSN, DNM1, PAK1, VAV2, CFL1, AKT2
KEGG_CHEMOKINE_SIGNALING_ PATHWAY 185 0.00 0.038 PLCB2, NCF1, GNB2, ELMO1, CX3CR1, GRK6, PPBP, GNAI2, CSK, GNB4, RELA, SHC1, HCK, ARRB1, PIK3CG, CRK, RASGRP2, CCR1, GNGT2, GNG5, GNG3, STAT5B, RAC1, LYN, AKT1, CCL2, JAK2, VAV1, GNG8, CCR2, CCR9, PRKACA, CCR7, XCR1, TIAM2, GNG12, RAF1, ARRB2, HRAS, CXCR5, PTK2B, PAK1, CCR3, VAV2
KEGG_COMPLEMENT_AND_ COAGULATION_CASCADES 68 0.01 0.038 C1QB, C1QC, C5AR1, SERPING1, C1QA, C2, KLKB1, C3AR1, THBD, SERPINA1, C4A, SERPINA5
  1. GS size: Gene set size (number of genes in a particular gene set); NOM p-val: nominal p value; FDR: false discovery rate.