Table 3.
List of DE genes found between CD4+CD8+ DP and CD8+ SP cells.
| Gene Symbol | Encoded Protein | p-Value | Log2FC | FDR | Gene Product Function * |
|---|---|---|---|---|---|
| Higher expression in CD4+CD8+ DP cells | |||||
| CD4 | T-cell surface glycoprotein CD4 | 4.11E-46 | 6.42 | 2.40E-41 | Cell differentiation antigen CD4, MHC class II receptor |
| TNFRSF4 | Tumor necrosis factor receptor superfamily member 4 (OX40) | 6.24E-11 | 3.19 | 3.64E-06 | Costimulatory molecule implicated in long-term T-cell immunity |
| CCR4 | C-C chemokine receptor type 4 (CCR4) | 5.80E-08 | 3.16 | 3.38E-03 | High-affinity binding for basophil chemoattractant, G protein coupled receptor superfamily, specific receptor for thymus and activation-regulated chemokine |
| NCF1 | Neutrophil cytosol factor 1 | 7.09E-10 | 2.08 | 4.14E-05 | Activate NADPH oxidase for superoxide production and oxygen dependent mechanism of phagocytosis |
| Reduced expression in CD4+CD8+ DP cells | |||||
| PTPRK | Receptor-type tyrosine-protein phosphatase kappa | 9.03E-08 | −2.06 | 5.27E-03 | Transmembrane receptor protein tyrosine phosphatase activity, regulation of processes involving cell contact and adhesion |
| CA6 | Carbonic anhydrase 6 | 1.58E-10 | −2.22 | 9.20E-06 | Carbonate dehydratase activity, protein binding |
| S100B | S100 Calcium-Binding Protein B | 6.52E-09 | −2.33 | 3.81E-04 | Calcium ion binding, protein homodimerization activity |
| ZNF433 | Zinc finger protein 433 | 3.47E-07 | −2.42 | 2.03E-02 | Transcriptional regulation, RNA polymerase II regulatory region sequence-specific DNA binding |
| DSEL | Dermatan-sulfate epimerase-like protein | 7.12E-08 | −2.45 | 4.15E-03 | Membrane proteins, sulfotransferase activity, isomerase activity |
| MMP28 | Matrix metalloproteinase-28 | 1.62E-07 | −2.50 | 9.48E-03 | Tissues homeostasis and repair, metalloendopeptidase activity |
| SPINK2 | Serine protease inhibitor Kazal-type 2 | 5.22E-07 | −2.67 | 3.04E-02 | Serine-type endopeptidase inhibitor activity |
| NT5E | 5′-nucleotidase | 9.12E-15 | −2.73 | 5.32E-10 | Hydrolyzes extracellular nucleotides into membrane permeable nucleosides |
| MXRA8 | Matrix remodeling-associated protein 8 | 1.56E-08 | −2.87 | 9.13E-04 | Transmembrane protein which can modulate activity of various signaling pathways |
| FBLN2 | Fibulin-2 | 2.67E-07 | −2.95 | 1.56E-02 | Extracellular matrix protein, expressed in elastic tissues including intima of blood vessels |
| CNN3 | Calponin-3 | 1.82E-11 | −2.98 | 1.06E-06 | Cytoskeletal protein involved in cell-cell adhesion, downregulated during dedifferentiation of vascular smooth muscle cell |
| PRCD | Photoreceptor disk component | 6.21E-09 | −3.15 | 3.62E-04 | Opsin binding |
| NOG | Noggin | 7.99E-13 | −3.26 | 4.66E-08 | Cytokine binding, protein homodimerization activity |
| GIPC3 | PDZ domain-containing protein | 5.15E-08 | −3.30 | 3.00E-03 | Protein binding |
| REG4 | Regenerating islet-derived protein 4 | 3.15E-15 | −3.48 | 1.84E-10 | Carbohydrate binding, signaling receptor activity |
| SDK2 | Protein sidekick-2 | 4.31E-08 | −3.62 | 2.52E-03 | Adhesion molecule |
Log2FC, log2 fold change; FDR, false-discovery rate; DE genes cut off: FDR < 0.05 and Log2FC > 2, * Gene protein products with functional annotation information was extracted from UniProt Consortium [26].