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Fig. 1 | Cell & Bioscience

Fig. 1

From: Transcriptome-scale spatial gene expression in rat arcuate nucleus during puberty

Fig. 1

Cell clusters identification in rat hypothalamus by spatial transcriptomics sequencing. A Schematic diagram of spatial transcriptomics sequencing of rat hypothalamus with postnatal day (PND)-25, 35 and 45. The target hypothalamus is sectioned at bregma: − 2.52 to − 2.92 mm and interaural: 6.08 to 6.48 mm. The tSNE (B) and UMAP (C) plots showing the cells are classified into 14 clusters based on the transcriptomes of overall gene expression relationship among the 12,436 spots with 5179 genes. Different cell clusters are color-coded. The clusters of ventromedial hypothalamus nucleus (VMH) (Cluster 1), arcuate nucleus (ARC) (Cluster 9), and paraventricular nucleus (PVN) (Cluster 13) are highlighted. DF Feature plots showing the distribution of clusters in brain sections of PND-25, 35 and 45. The colors and names of each cluster are corresponding to B. G Violin plots showing the gene expressions of Ghrh, Trh, Npvf, Dlk1, Ces1d and Nkx2-1 in all 14 clusters. HJ Cell type heatmap showing the proportion of different cell types occupied in each cluster of PND-25, 35 and 45. KM Chord diagrams showing that all spot sites on a spatial slice of a sample contain both specific cells of PND-25, 35 and 45. The thicker lines represent that these two cell types share more spots

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