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Table 2 Differentially expressed immune genes, their annotated proteins, and their annotated biological processes based on gene ontologies in CFS patients as compared to healthy controls, adjusted for age and gender differences across groups and sorted according to foldchange

From: Whole blood gene expression in adolescent chronic fatigue syndrome: an exploratory cross-sectional study suggesting altered B cell differentiation and survival

Differential expression Gene name Ensembl ID Fold change p value, unadjusted p value, adjusted Protein Gene ontology biological process Gene ontology identifier
Downregulated gene expression in CFS patients as compared to healthy controls CD79A ENSG00000105369 0.821 0.00012 0.0393 CD79a molecule B cell differentiation GO:0030183
       B cell proliferation GO:0042100
       B cell activation GO:0042113
       B cell receptor signaling pathway GO:0050853
TNFRSF13C ENSG00000159958 0.829 0.00012 0.0395 Tumor necrosis factor receptor superfamily member 13C B cell homeostasis GO:0001782
FLT3 ENSG00000122025 0.833 0.00055 0.0682 Fms related tyrosine kinase 3 Myeloid progenitor cell differentiation GO:0002318
       Pro-B cell differentiation GO:0002328
       Transmembrane receptor protein tyrosine kinase signaling pathway GO:0007169
       Positive regulation of cell proliferation GO:0008284
       Cytokine-mediated signaling pathway GO:0019221
       B cell differentiation GO:0030183
       Lymphocyte proliferation GO:0046651
       Cellular response to cytokine stimulus GO:0071345
       Cellular response to glucocorticoid stimulus GO:0071385
EBF1 ENSG00000164330 0.836 0.00041 0.0615 Early B cell factor 1 Multicellular organism development GO:0032501
CXCR5 ENSG00000160683 0.848 0.00073 0.0735 C-X-C motif chemokine receptor 5 Positive regulation of cytokinesis GO:0032467
       B cell activation GO:0042113
       Lymph node development GO:0048535
       Chemokine-mediated signaling pathway GO:0070098
IRF4 ENSG00000137265 0.863 0.00116 0.0879 Interferon regulatory factor 4 Negative regulation of toll-like receptor signaling pathway GO:0034122
HIPK2 ENSG00000064393 0.891 0.00054 0.0682 Homeodomain interacting protein kinase 2 Positive regulation of cell proliferation GO:0008284
       Positive regulation of cytokine production GO:0001819
       Activation of innate immune response GO:0002218
       Inflammatory response GO:0006954
       Myeloid cell differentiation GO:0030099
        Monocyte differentiation GO:0030224
       Positive regulation of type I interferon production GO:0032481
       Positive regulation of interleukin-1 beta production GO:0032731
       Negative regulation of viral genome replication GO:0045071
       Innate immune response GO:0045087
SLC25A6 ENSG00000169100 0.901 0.00107 0.0848 Solute carrier family 25 member 6 Active induction of host immune response by virus GO:0046732
EEF2 ENSG00000167658 0.902 0.00007 0.0341 Eukaryotic translation elongation factor 2 Hematopoietic progenitor cell differentiation GO:0002244
ST6GAL1 ENSG00000073849 0.932 0.00069 0.0735 ST6 beta-galactoside alpha-2,6-sialyltransferase 1 Humoral immune response GO:0006959
Upregulated gene expression in CFS patients as compared to healthy controls OGT ENSG00000147162 1.087 0.00022 0.0461 O-linked N-acetylglucosamine (GlcNAc) transferase Positive regulation of granulocyte differentiation GO:0030854
ATG7 ENSG00000197548 1.095 0.00026 0.0525 Autophagy related 7 Positive regulation of macroautophagy GO:0016239
LCP2 ENSG00000043462 1.095 0.00132 0.0915 Lymphocyte cytosolic protein 2 Immune response GO:0006955
PTPRE ENSG00000132334 1.096 0.00057 0.0699 Protein tyrosine phosphatase, receptor type E Transmembrane receptor protein tyrosine phosphatase signaling pathway GO:0007185
PRKCD ENSG00000163932 1.102 0.00073 0.0735 Protein kinase C delta Activation of phospholipase C activity GO:0007202
TNFRSF25 ENSG00000215788 1.108 0.00113 0.0872 Tumor necrosis factor receptor superfamily member 25 Inflammatory response GO:0006954
TLR8 ENSG00000101916 1.109 0.00132 0.0915 Toll like receptor 8 Toll-like receptor signaling pathway GO:0002224
BTN3A3 ENSG00000111801 1.124 0.00015 0.0406 Butyrophilin subfamily 3 member A3 T cell mediated immunity GO:0002456
S100A8 ENSG00000143546 1.142 0.00110 0.0859 S100 calcium binding protein A8 Cytokine production GO:0001816
NBEAL2 ENSG00000160796 1.143 0.00086 0.0752 Neurobeachin like 2 Hematopoietic progenitor cell differentiation GO.0002244
IFI16 ENSG00000163565 1.146 0.00066 0.0735 Interferon gamma inducible protein 16 Negative regulation of innate immune response GO:0045824
       Adaptive immune response GO:0002250
       Positive regulation of germinal center formation GO:0002636
       Positive regulation of B cell proliferation GO:0030890
       T cell costimulation GO:0031295
       B cell costimulation GO:0031296
       Positive regulation of T cell proliferation GO:0042102
       Positive regulation of interferon-gamma biosynthetic process GO:0045078
BST1 ENSG00000109743 1.148 0.00070 0.0735 Bone marrow stromal cell antigen 1 Humoral immune response GO:0006959
JAML ENSG00000160593 1.151 0.00000 0.0063 Junction adhesion molecule like Neutrophil chemotaxis GO:0030593
TRIM25 ENSG00000121060 1.155 0.00035 0.0590 Tripartite motif containing 25 Viral process GO:0016032
FAM111A ENSG00000166801 1.157 0.00008 0.0341 Family with sequence similarity 111 member A Negative regulation of viral genome replication GO:0045071
       Defense response to virus GO:0051607
CASP1 ENSG00000137752 1.165 0.00096 0.0799 Caspase 1 Regulation of inflammatory response GO:0050727
RIPK3 ENSG00000129465 1.167 0.00001 0.0136 Receptor interacting serine/threonine kinase 3 Regulation of T cell mediated cytotoxicity GO:0001914
CLEC2B ENSG00000110852 1.179 0.00007 0.0336 C-type lectin domain family 2 member B Regulation of immune response GO:0050776
IL1RN ENSG00000136689 1.191 0.00016 0.0406 Interleukin 1 receptor antagonist Negative regulation of cytokine-mediated signaling pathway GO:0001960
IRF9 ENSG00000213928 1.200 0.00041 0.0615 Interferon regulatory factor 9 Cell surface receptor signaling pathway GO:0007166
ADCY4 ENSG00000129467 1.206 0.00013 0.0395 Adenylate cyclase 4 cAMP-mediated signaling GO:0019933
PLSCR1 ENSG00000188313 1.209 0.00050 0.0677 Phospholipid scramblase 1 Platelet activation GO:0030168
PDE1B ENSG00000123360 1.220 0.00011 0.0381 Phosphodiesterase 1B Monocyte differentiation GO:0030224
APOBEC3A ENSG00000128383 1.216 0.00004 0.0276 Apolipoprotein B mRNA editing enzyme catalytic subunit 3A Defense response to virus GO:0051607
  1. A list of all 176 differentially expressed genes in the present study is given in Additional file 3: Table S3