Journal of Jinan University Natural Science & Medicine Edition

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Single-nucleus sequencing revealing the cell populations and proportion in adult mouse heart

LIANG Chunbao, LI Lilin, CAI Dongqing

Journal of Jinan University Natural Science & Medicine Edition, 2023, 44(2): 124-136. DOI: 10.11778/j.jdxb.20220246

细胞类型	标记基因	细胞群聚类	细胞数目	细胞数目占比/%
心肌细胞	Actn2,Tnnc1,Rcan2,Tnnt2	2,3,7	3 296	26.56
内皮细胞	Pecaml,Cdh5	0,4,8,9	4 897	39.46
成纤维细胞	Colla2,Col3a1,Colla1,Pdgfra	1	1 671	13.46
周细胞	Rgs5,Abcc9	5	823	6.63
免疫细胞	Cd74,Cd86,Cd83,Cd163	6,17,18	642	5.17
心内膜细胞	Hmcn1,Cgnl1	10	263	2.12
平滑肌细胞	Dgkb,Acta2,Kcnab1,Myh11	11,12	368	2.97
心脏胶质细胞	Cadm1,Slc35f1	13,14	254	2.05
间皮细胞	Wdr17,Gpm6a,Msln,Bnc1	15	119	0.96
成肌细胞	Pard6g,Mmrn1,Reln	16	78	0.63

Table 1 tSNE cell attribute

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Figure 1 Distribution of the gene number detected in single nucleus
Figure 2 Distribution of nFeature_RNA, nCount_RNA and percent.mt of mouse cardiac cells A: Distribution of nFeature_RNA and nCount_RNA for raw data of single-nucleus sequencing; B: Distribution of nFeature_RNA and nCount_RNA for raw data of single-nucleus sequencing after removed dead cells, cell debris and multicellular droplet; When nFeatures_RNA number is in the range of 200-2 829 gene numbers, the proportion of mitochondrial genes is zero; nFeature_RNA: The number of genes detected in each cell; nCount_RNA: Total number of molecules detected in cells; percent.mt: Proportion of mitochondrial related genes in the data
Figure 3 Principal component analysis of mouse heart by single-nucleus sequencing A: Principal Component Analysis;B: The top 30 principal components in ElbowPlot
Figure 4 tSNE clustering of mouse cardiac cells
Figure 5 Annotation of cellular properties of tSNE clustering of mouse cardiac cells
Figure 6 Marker genes of cardiomyoctes displayed by tSNE clustering
Figure 7 Marker genes of endothelial cells displayed by tSNE clustering
Figure 8 Marker genes of fibroblasts displayed by tSNE clustering
Figure 9 Marker genes of pericytes displayed by tSNE clustering
Figure 10 Marker genes of immune cells displayed by tSNE clustering
Figure 11 Marker genes of endocardial cells displayed by tSNE clustering
Figure 12 Marker genes of smooth muscle cells displayed by tSNE clustering
Figure 13 Marker genes of cardiac glial cells displayed by tSNE clustering
Figure 14 Marker genes of mesothelial cells displayed by tSNE clustering
Figure 15 Marker genes of myoblasts displayed by tSNE clustering
Figure 16 The heat map of top ten differential expression genes in different cell populations and the proportion of different cell types in mouse heart A: The heat map of top ten differential expression genes in different cell populations of mouse heart; B: The proportion of different cell types of mouse heart

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