nCounter® Glial Profiling Panel

Comprehensively study the role of astrocytes, microglia, and oligodendrocytes in health and disease with the nCounter® Glial Profiling Panel. Decipher the complex interplay between glial cells, peripheral immune cells, and neurons that underlies neurodegenerative & neuroinflammatory disorders and neurotrauma such as stroke, spinal cord injury, & traumatic brain injury.


  • Profile 770 genes across 50+ pathways involved in glial cell biology:
    • Cell stress & Damage Response
    • Pathways Regulating Glia
    • Inflammation & Peripheral Immune Invasion
    • Glial Cell Homeostasis & Activation
    • Neurotransmission
  • Quantify the relative abundance of 5 CNS cell types and 14 peripheral immune cells
  • Customizable with Panel Plus option - add up to 55 genes of your choice


Cell Stress & Damage Response (Hs/Mm Genes) Pathways Regulating Glia (Hs/Mm Genes) Inflammation & Peripheral Immune Invasion (Hs/Mm Genes)
(127/134) (178/180) (187/188)
Angiogenesis Calcium Signaling Antigen Processing and Presentation
Apoptosis Circadian Signaling Cell Migration
Autophagy Ion Transport Chemokines
Cell Cycle JAK-STAT Complement System
Hypoxia Lipid Metabolism Cytokines
NO Metabolism and Signaling MAPK & PI3K Inflammasome
Oxidative & Nitrosative Stress TGF-Beta Signaling Interferon Signaling
Proteotoxic Stress Wnt Signaling NK-kappaB Signaling
    T Cell Signaling
Glial Cell Homeostasis & Activation (Hs/Mm Genes) Neurotransmission (Hs/Mm Genes)
(317/310) (215/211)
A1 Astrocyte Cannabinoid Signaling
A2 Astrocyte Cholinergic Synapse
Astrocyte Differentiation/Function Dopaminergic Synapse
Astrocyte Markers GABAergic Synapse
Blood Brain Barrier Glutamatergic Synapse
Cytoskeletal Dynamics Neuroactive Ligands and Receptors
Gap Junctions Neurogenesis
Glucose Metabolism Neuronal Markers
Homeostatic Microglia Purinergic Signaling
Microglia Neurodegenerative Phenotype (MGnD) Serotonergic Synapse
Microglial Markers  
Neurotrophin Signaling  
Oligodendrocyte Differentiation/Maturation  
Oligodendrocyte Markers  
Primed Microglia  
Stage 1 DAM  
Stage 2 DAM  
Cell Type Associated Human Genes Associated Mouse Genes
Astrocytes ALDH1L1, EGFR, ENTPD2, GDPD2, ITGA7, MYORG, NWD1, SOX9 Aldh1l1, Egfr, Entpd2, Gdpd2, Itga7, Myorg, Nwd1, Sox9
B cells BLK, CD19, FAM30A, FCRL2, MS4A1, PNOC, SPIB, TCL1A, TNFRSF17 Blk, Cd19, Fcrlb, Ms4a1, Pnoc, Spib, Tcl1, Tnfrsf17
CD45+ cells PTPRC Ptprc
CD8 T cells CD8A, CD8B Cd8a, Cd8b1
Cytotoxic cells CTSW, GNLY, GZMA, GZMB, GZMH, KLRB1, KLRD1, KLRK1, NKG7, PRF1 Ctsw, Gzma, Gzmb, Klrb1, Klrd1, Klrk1, Nkg7, Prf1
Dendritic cells CCL13, CD209, HSD11B1 Ccl2, Cd209e, Hsd11b1
Endothelial cells CLDN5, EMCN, ESAM, FLT1, ICAM2, LSR, MYCT1, NOSTRIN, TIE1 Cldn5, Emcn, Esam, Flt1, Icam2, Lsr, Myct1, Nostrin, Tie1
Exhausted CD8 cells CD244, EOMES, LAG3, PTGER4 Cd244a, Eomes, Lag3, Ptger4
Macrophages/Microglia CD163, CD68, CD84, GPR84, IRF8, LRRC25, MS4A4A, NCF1, TLR2, TNF Gpr84, Irf8, Lrrc25, Ncf1, Tlr2, Aif1, Tmem119, Itgam, Cx3cr1, P2ry12, Spi1
Mast cells CPA3, HDC, MS4A2, TPSAB1/B2 Cpa3, Hdc, Ms4a2, Tpsab1, Tpsb2
NK CD56dim cells IL21R, KIR2DL3, KIR3DL1, KIR3DL2 Il21r, Kir3dl1/2
NK cells NCR1, XCL1/2 Ncr1, Xcl1
Neurons DLX1, DLX2, GRM2, ISLR2, SLC17A6, TBR1 Dlx1, Dlx2, Grm2, Islr2, Slc17a6, Tbr1
Neutrophils CEACAM3, CSF3R, FCAR, FCGR3A/B, FPR1, S100A12, SIGLEC5 Ceacam3, Csf3r, Fcgr4, Fpr1
Oligodendrocytes BCAS1, ERBB3, FA2H, GAL3ST1, GJB1, GSN, MYRF, NINJ2, PLEKHB1, PLLP, PLXNB3, PRKCQ, SOX10, TMEM88B, UGT8 Bcas1, Erbb3, Fa2h, Gal3st1, Gjb1, Gsn, Myrf, Ninj2, Plekhb1, Pllp, Plxnb3, Prkcq, Sox10, Tmem88b, Ugt8a
T cells CD3D, CD3E, CD3G, CD6, SH2D1A, TRAT1 Cd3d, Cd3e, Cd3g, Cd6, Sh2d1a, Trat1
Th1 cells TBX21 Tbx21
Tregs FOXP3 Foxp3
Feature Specifications
Number of Targets 770 (Human or Mouse), including internal reference genes
Sample Input - Standard (No amplification required) 25-300 ng
Sample Input - Low Input As little as 1 ng with nCounter Low Input Kit (sold separately)
Sample Type(s) Cultured cells/cell lysates, sorted cells, FFPE-derived RNA, total RNA, fragmented RNA, PBMCs, and whole blood/plasma
Customizable Add up to 55 unique genes with Panel-Plus and up to 10 custom protein targets
Time to Results Approximately 24 hours
Data Analysis nSolver™ Analysis Software (RUO)
  1. Butovsky, O et al. Microglia activated by IL-4 or IFN-g differentially induce neurogenesis and oligodendrogenesis from adult stem/progenitor cells. Molecular and Cellular Neuroscience. 2006;31(1):149-60.
  2. Butovsky, O et al. Identification of a unique TGF-b–dependent molecular and functional signature in microglia. Nature Neuroscience. 2014;17(1): 131-43.
  3. Butovsky O and Weiner HL. Microglial signatures and their role in health and disease. Nature Reviews Neuroscience. 2018;19:622-35.
  4. Danaher, P et al. Gene Expression Markers of Tumor Infiltrating Leukocytes. J Immunother Cancer. 2017;21(5):18.
  5. Hickman, SE et al. The Microglial Sensome Revealed by Direct RNA Sequencing. Nature Neuroscience. 2013;16(12):1896-905.
  6. Keren-Shaul, H et al. A Unique Microglia Type Associated with Restricting Development of Alzheimer’s Disease. Cell. 2017;169(7):1276-90.
  7. Liddelow, SA et al. Neurotoxic reactive astrocytes are induced by activated microglia. Nature. 2017;541:481-87.
  8. Ljubisavljevic S and Stojanovic I. Neuroinflammation and demyelination from the point of nitrosative stress as a new target for neuroprotection. Rev Neurosci. 2015;26(1): 49-73.
  9. Lund, H et al. Competitive repopulation of an empty microglial niche yields functionally distinct subsets of microglia-like cells. Nature Commun. 2018;9:4845.
  10. Parhizkar, S et al. Loss of TREM2 function increases amyloid seeding but reduces plaque-associated ApoE. Nature Neuroscience. 2019;22(2):191-204.
  11. Taxin, ZH et al. Modeling Molecular Pathways of Neuronal Ischemia. Prog Mol Biol Transl Sci. 2014;123:249-75.
  12. Yamasaki, R et al. Differential roles of microglia and monocytes in the inflamed central nervous system. J Exp Med. 2014;211(8):1533-49.
  13. Zhang, Y et al. Purification and characterization of progenitor and mature human astrocytes reveals transcriptional and functional differences with mouse. Neuron. 2016;89(1):37-53.
  14. Ziv, Y et al. Immune cells contribute to the maintenance of neurogenesis and spatial learning abilities in adulthood. Nature Neuroscience. 2006;9:268-75.
Product Product Description Quantity Catalog Number
nCounter Human Glial Profiling Panel Includes 770 genes; 13 internal reference genes for data normalization 12 Reactions XT-CSO-H-GLIAL-12
nCounter Mouse Glial Profiling Panel Includes 770 genes; 13 internal reference genes for data normalization 12 Reactions XT-CSO-M-GLIAL-12
nCounter Master Kit (MAX or FLEX Systems) Reagents and Cartridges Reagents, cartridges, and consumables necessary for sample processing on nCounter MAX and FLEX Systems 12 Reactions NAA-AKIT-012
nCounter SPRINT Cartridge 1 Cartridge, 12 lanes Sample Cartridge for nCounter SPRINT System 12 Reactions SPRINT-CAR-1.0
nCounter SPRINT Reagent Pack nCounter SPRINT Reagent Pack containing Reagents A, B, C, and Hybridization Buffer 192 Reactions SPRINT-REAG-KIT




For Research Use Only. Not for use in diagnostic procedures.