Table 2.
NanoString gene panels used to define specific immune cell subsets in tissue biopsies
| Immune cell type | NanoString gene panel |
|---|---|
| T cells | CD2, CD3E, CD3G, CD6 |
| Helper T cells | ANP32B, BATF, NUP107, CD28, ICOS |
| TH1 | CD38, CSF2, IFNG, IL12RB2, LTA, CTLA4, TXB21, STAT4 |
| TH2 | CXCR6, GATA3, IL26, LAIR2, PMCH, SMAD2, STAT6 |
| TH17 | IL17A, IL17RA, RORC |
| Follicular helper T cells | CXCL13, MAF, PDCD1, BCL6 |
| Memory T cells | |
| Central memory T cells | ATM, DOCK9, NEFL, REPS1, USP9Y |
| Effector memory T cells | AKT3, CCR2, EWSR1, LTK, NFATC4 |
| Regulatory T cells | FOXP3 |
| Cytotoxic CD8 T cells | CD8A, CD8B, FLT3LG, GZMM, PRF1 |
| Gamma delta T cellls | CD160, FEZ1, TARP |
| B cells | BLK, CD19, CR2, HLA-DOB, MS4A1, TNFRSF17 |
| Natural killer cells | BCL2, FUT5, NCR1, ZNF205 |
| CD56 high | FOXJ1, MPPED1, PLA2G6, RRAD |
| CD56 low | GTF3C1, GZMB, IL2IR |
| Dendritic cells | |
| Myeloid dendritic cells | CCL13, CCL17, CCL22, CD209, HSD11B1 |
| Immature dendritic cells | CD1A, CD1B, CD1E, F13A1, SYT17 |
| Activated dendritic cells | CCL1, EBI3, IDO1, LAMP3, OAS3 |
| Plasmacytoid dendritic cells | IL3RA |
| Myeloid cells | |
| Macrophages | APOE, CCL7, CD68, CHIT1, CXCL5, MARCO, MSR1 |
| Mast cells | CMA1, CTSG, KIT, MS4A2, PRG2, TPSAB1 |
| Neutrophils | CSF3R, FPR2, MME |
| Eosinophils | CCR3, IL5RA, PTGDR2, SMPD3, THBS1 |