Table 1. Partial list of genes expressed in exhausted and/or anergic T cells that are also induced in CA-RIT-NFAT1-expressing CD4 and CD8 T cells.
The table shows representative genes (identified by RNA-seq) that are significantly induced in CD4+ and CD8+ T cells upon CA-RIT-NFAT1 expression and also overlap with genes expressed in in vivo-generated anergic and exhausted T cells.
| Cell surface receptors and ligands | ||
| Lag3 | Lymphocyte-activation gene 3 | * |
| Tnfrsf9 | Tumor necrosis factor receptor superfamily member 9; 4-1BB | * |
| Ptger2 | Prostaglandin E2 receptor 2 | * |
| Havcr2 | Hepatitis A virus cellular receptor 2; TIM-3 | * |
| Alcam | Activated Leukocyte cell adhesion molecule | * |
| Tigit | T cell immunoreceptor with Ig and ITIM domains | + |
| Ctla4 | Cytotoxic T-Lymphocyte Antigen 4 | + |
| Ptger4 | Prostaglandin E2 receptor 4 | + |
| Tnfrsf1b | Tumor necrosis factor receptor superfamily member 1b | + |
| Ccl4 | Chemokine (C-C motif) ligand 4 | + |
| CD109 | Cluster of Differentiation 109 | # |
| CD200 | Cluster of Differentiation 200; Ox-2 | # |
| Tnfsf9 | Tumor necrosis factor superfamily member 9; 4-1BBL | # |
| Nrp1 | Neuropilin-1 | # |
| Sema4c | Semaphorin-4C | # |
| Ptprj | Receptor-type tyrosine-protein phosphatase eta | # |
| Il21 | Interleukin 21 | # |
| Tspan2 | Tetraspanin-2 | # |
| Transcription factors | ||
| Ikzf2 | IKAROS family zinc finger 2; Helios | * |
| Egr2 | Early growth response protein 2 | * |
| Tox | Thymocyte selection-associated high mobility group box protein | * |
| Zeb2 | Zinc finger E-box-binding homeobox 2 | * |
| Irf4 | Interferon Regulatory Factor | * |
| Nfatc1 | Nuclear Factor of Activated T cells c1; NFAT2 | * |
| Zbtb32 | Zinc finger and BTB domain-containing protein 32; ROG | # |
| Rbpj | Recombinant binding protein suppressor of hairless | # |
| Hif1a | Hipoxia-inducible factor 1-alpha | # |
| Signaling | ||
| Rgs16 | Regulator of G-protein signaling 16 | * |
| Sh2d2a | SH2 domain-containing protein 2A | + |
| Nucb1 | Nucleobindin-1 | + |
| Plscr1 | Phospholipid scramblase 1 | + |
| Ptpn11 | Tyrosine-protein phosphatase non-receptor type 11 | # |
| Prkca | Protein kinase C alpha (PKCa) | # |
| Plscr4 | Phospholipid scramblase 4 | # |
| Others | ||
| Casp3 | Caspase 3 | * |
| Gpd2 | Glycerol-3-phosphate dehydrogenase | + |
| Gas2 | Growth arrest-specific protein 2 | + |
| Sh3rf1 | SH3 domain containing ring finger 1 | # |
| Nhedc2 | Na+/H+ exchanger domain containing 2 | # |
| Plek | Pleckstrin | # |
| Tnfaip2 | Tumor necrosis factor, alpha-induced protein 2 | # |
| Ctsb | Cathepsin B | # |
*
genes that are upregulated in both anergic and exhausted T cells;
+
genes whose expression is significantly upregulated in exhausted T cells but is not statistically significant in anergic T cells;
#
genes whose expression is significantly upregulated in anergic T cells but is not statistically significant in exhausted T cells. In vivo data obtained from (Doering et al., 2012; Okamura et al., 2009; Wherry et al., 2007).