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Fig. 1 | Stem Cell Research & Therapy

Fig. 1

From: Mesenchymal stem cells transplanted into spinal cord injury adopt immune cell-like characteristics

Fig. 1

Global transcriptional changes in MSCs. a Experimental design. Transplanted MSCs were evaluated 7 days following transplantation. b Principal component analysis using the 500 genes with the highest inter-sample variance. Spheres represent biological replicates in 3D, while squared dots represent biological replicates in 2D (on the walls of the box), comparing two components at a time. c Agglomerative hierarchical clustering of biological replicates presented using a dendrogram. Data is based on the value of the first and second principal component for each biological replicate. Numbers in parentheses are animal index numbers. d Unique number of significantly differentially expressed genes in each contrast and the number of genes shared between the contrasts. Color of text specifying the contrast corresponds to the color of the circle in the Venn diagram. e Differentially expressed genes presented using a volcano plot. f Heat map of unique significantly differentially expressed genes based on all three contrasts with row- and column-wise agglomerative hierarchical clustering. g Up- and downregulated categories for contrasts MSC[SCI] vs MSC[In vitro] and MSC[Naive] vs MSC[In vitro]. Barcode plots are presented with a p value determined using a competitive gene set test. Representative Gene Ontology (biological process) terms are presented for each category. Green color indicates a category downregulated in MSC[SCI]/MSC[Naive], while red indicates a category upregulated in MSC[SCI]/MSC[Naive] as compared to MSC[In vitro]

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