Neuronal Cell Types

Detection, characterization and (co-) localization of neuronal cell types and subcellular target localization

The RNAscope® assay can be used for the visualization of multiple target co-expression patterns or the co-expression of the target(s) of interest with desired cell type markers that characterize particular types of neurons or glia. Commonly used cell type markers to distinguish neuronal and glial target expression patterns include Rbfox3, Aif1, and Gfap for the detection of neurons, microglia and astrocytes, respectively. The striatum harbors two distinct neuronal populations that either express Dopamine Receptor D1 (Drd1) – the striatonigral pathway – or Dopamine Receptor D2 (Drd2) - the striatopallidal pathway. These different neuronal cell types can be accurately detected and visualized using the RNAscope® technology. Images for the detection of these different cell type markers can be found in our image gallery. Commonly used cell typer markers can be found in the table below:

Cell Type Markers
Neuroepithelial cells NestinSOX2notch1HES1, HES3, E-cadherinoccludin
Radial glia VimentinnestinPAX6HES1HES5GFAPGLASTBLBPTN-CN-cadherinSOX2
Intermediate progenitors TBR2MASH1/ Ascl1
Immature neurons Doublecortinbeta III tubulinNeuroD1TBR1stathmin 1
Oligodendrocyte precursor cells PDGF receptor alphaNG2
Mature oligodendrocytes Olig1Olig2, Olig3, MBPOSPMOGSOX10
Schwann cells MPZ, NCAMGAP43S100
Astrocytes GFAPEAAT1/ GLASTEAAT2/ GLT-1glutamine synthetaseS100-betaALDH1L1
Microglia CD11bCD45Iba1F4/80CD68CD40
Mature neurons NeuN = RbFox3MAP2160kDa neurofilament medium200kDA neurofilament heavysynaptophysinPSD95
Glutamateric neurons vGluT1vGluT2NMDAR1NMDAR2Bglutaminaseglutamine synthetase
GABAergic neurons GABA transporter 1GABA receptor 1GABA receptor 2GAD 65 = Gad2GAD67 = Gad1
Dopaminergic neurons Tyrosine Hydroxylase = THdopamine transporterFOXA2GIRK2Nurr1LMX1B
Serotonergic neurons Tryptophan hydroxylaseserotonin transporterPet1
Cholinergic neurons Choline acetyltransferasevesicular acetylcholine transporteracetylcholinesterase

Download scientific poster “Highly sensitive detection of RNA in mouse central and peripheral nervous system using the RNAscope® ISH Technology

Application review

Learn more in our RNAscope® Neuroscience Application Review - Cellular localization of RNA expression in central and peripheral nervous system using RNAscope® Technology.

Cellular localization of RNA expression in central and peripheral nervous system using RNAscope® Technology

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Neuroscience Gene List

(click on gene name to access corresponding RNAscope® probes)




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