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. 2020 Dec 23;9:e59545. doi: 10.7554/eLife.59545

Figure 7. Transcriptomic similarity and endogenous Nrxn expression in hippocampal VGT3+, Pv+, and Sst+ inhibitory interneurons.

(A) Single-cell t-SNE plot of 15 single cells obtained from VGT3+ (magenta: MU_VGT3.1–5), Pv+ (yellow: MU_Pv.1–5), and Sst+ (orange: MU_Sst.1–5) interneurons compared to Allen Brain Atlas single cells (CA1-ProS; CA1-prosubiculum, CA2; CA2, CA3; CA3, DG; dentate gyrus, L2 IT RHP; Layer2, intratelencephalic, retrohippocampal region, L2/3 IT CTX-2; Layer2/3, intratelencephalic, cortical region, L2/3 IT ENTl; Layer2/3, intratelencephalic, lateral entorhinal area, L5 IT TPE-ENT; Layer5, intratelencephalic, temporal, perirhinal, and ectorhinal area, L6 CT CTX; Layer6, near-projecting (NP), L6 corticothalamic (CT), Lamp5; Lamp5-positive, Meis2; Meis2-positive, NP SUB; near-projecting, subiculum, Pvalb; Pvalb-positive, Sncg; Sncg-positive, Sst; Sst-positive, SUB-ProS; subiculum-prosubiculum, Vip; Vip-positive). (B) Summary bar graph of Nrxn gene (Nrxn1, 2, and 3) expression in VGT3+, Pv+, and Sst+ interneurons. (C–E) Summary graphs of splice isoforms of Nrxn1 (C), 2 (D), and 3 (E) in VGT3+, Pv+, and Sst+ interneurons. *p<0.05, one-way ANOVA followed by Sidak’s multiple comparisons test or Mann–Whitney U-test, N = 5 cells for each interneuron type.

Figure 7—source data 1. Inhibitory interneuron_tSNE data.
Figure 7—source data 2. Heat map of inhibitory interneurons.

Figure 7.

Figure 7—figure supplement 1. Heat map of Nrxn gene expression in VGT3+, Pv+, and Sst+ inhibitory interneurons.

Figure 7—figure supplement 1.

A hierarchical clustering of Nrxn expression levels of 15 single cells (shown in black in the study annotation bar) obtained from VGT3+ (magenta: MU_VGT3.1–5), Pv+ (yellow: MU_Pv.1–5), and Sst+ (orange: MU_Sst.1–5) interneurons compared to 85 randomly selected hippocampal GABAergic neurons from the Allen Brain Atlas (shown in gray in the study annotation bar) demonstrated similarities between the MU cells and the Allen Brain Atlas dataset. Scale bar shows the batch-corrected log2+one transformed count-per-million (CPM) values.