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Fig. 5 | Genome Biology

Fig. 5

From: scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation

Fig. 5

Cell type-specific changes in transcriptome. a Proportion of mitochondrial reads relative to T0 calculated for the spleen, esophagus, and lung. The fold change (FC) of mitochondrial percentage is measured in every cell type between T0 and 12 h, 24 h, and 72 h. FC is indicated by color with white indicating no fold change (FC = 1), blue indicating a drop in mitochondrial percentage, and red indicating an increase in mitochondrial percentage compared to T0 (FC > 1). The Benjamini and Hochberg (BH)-adjusted p values are indicated by asterisk as follows: *p value < 0.01, **p value < 0.00001, and ***p value < 0.00000001. All cells are used including those with high mitochondrial percentage (> 10%), annotated via scmap tool. Gray indicated time points with fewer than 5 cells. Missing values (no sample) are shown by a cross. b Percentage of variance in gene expression explained by time for cell type groups in the lung, esophagus, and spleen. Cell type groups in the lung are Endothelial (Blood vessel, Lymph vessel), Alveolar (Alveolar Type 1 and Type 2), Mono_macro (Monocyte, Macrophage_MARCOneg, Macrophage_MARCOpos), and T_cell (T_CD4, T_CD8_Cyt, T_regulatory). Cell type groups in the spleen are Mono_macro (Monocyte, Macrophage), NK (NK_FCGR3Apos, NK_CD160pos), T_cell (T_CD4_conv, T_CD4_fh, T_CD4_naive, T_CD4_reg, T_CD8_activated, T_CD8_CTL, T_CD8_gd, T_CD8_MAIT-like, T_cell_dividing), and B_cell (B_follicular, B_Hypermutation, B_mantle). c Hierarchical clustering of cell types of up to 10 cells per cell type per tissue per donor and time. Cell attributes (cell type, organ, time, and donor ID) are indicated by color

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