Table 1 Overview of recent brain scRNA-seq studies
Brain region | Isolation method | RT and cDNA amplification | # of cells sequenced | Major populations identified | # of cells in population | Subpopulations identified | Refs. |
|---|---|---|---|---|---|---|---|
Primary visual cortex | FACS | SMARTer | 1600 | GABAergic neurons | 761 | 23 | [21] |
Glutamatergic neurons | 764 | 19 | |||||
Non-neuronal | 103 | 7 | |||||
Somatosensory cortex, hippocampal CA1 | Fluidigm, FACS | STRT/C1 | 3005 | S1 pyramidal neurons | 390 | 8 | [8] |
CA1 pyramidal neurons | 961 | 4 | |||||
Interneurons | 300 | 16 | |||||
Oligodendrocytes | 811 | 6 | |||||
Astrocytes | 210 | 2 | |||||
Microglia | 90 | 5 | |||||
Vascular endothelial cells | 180 | 2 | |||||
Mural cells | 60 | 2 | |||||
Ependymal cells | 30 | 2 | |||||
Hippocampal dentate gyrus | Pippeting | SMART-seq | 168 | CFPnunc qNSC or NPCs | 132 | 6 | [73] |
CFPnuc− non-NPCs | 26 | 5 | |||||
Striatum | Fluidigm, FACS | SMART-seq2, SMARTer | 1208 | Neurons (D1-MSN, D2-MSN, interneurons) | 368 | 3 | [74] |
Astrocytes | 107 | 1 | |||||
Oligodendrocytes: newly formed (NFO), mature (MO) | 43 | 2 | |||||
Stem cells (NSC, OPC) | 20 | 2 | |||||
Vascular cells (VSMCs, Endothelial) | 43 | 2 | |||||
Immune cells (microglia, macrophage) | 119 | 2 | |||||
Ependymal (ciliated, secretory) | 39 | 2 | |||||
Somatosensory cortex, dentate gyrus, hippocampus CA1, corpus callosum, amygdala, hypothalamus, zona incerta, SN-VTA, dorsal horn | Fluidigm, FACS | STRT/C1 | 5072 | Oligodendrocyte precursor cells (OPC) | 310 | 1 | [75] |
Committed oligodendrocyte precursors (COP) | 140 | 1 | |||||
Newly formed oligodendrocytes (NFOL1, NFOL2) | 219, 293 | 2 | |||||
Myelin-forming oligodendrocytes (MFOL1, MFOL2) | 353, 933 | 2 | |||||
Mature oligodendrocytes (MOL1, …, MOL6) | 126, …, 835 | 6 | |||||
Vascular and leptomeningeal cells (VLMC) | 76 | 1 |