Fig. 5: Comparison of leukemic gene expression from 3D co-culture and in vivo leukemia xenografts. | Leukemia

Fig. 5: Comparison of leukemic gene expression from 3D co-culture and in vivo leukemia xenografts.

From: A three-dimensional ex vivo model recapitulates in vivo features and drug resistance phenotypes in childhood acute lymphoblastic leukemia

Fig. 5

A Sequencing of leukemic PDXs in three different conditions, mono-, co-culture and bone marrow cells from leukemia xenografts in vivo. B UMAP projections of the integrated datasets (RPCA reduction through Seurat), visualized by condition (left) and leukemia subtype (right). Subtype is the leading source of variability, determining the clustering in the UMAP projection. C Expression of leukemia-associated genes for B-ALL (scaled dot plot) across conditions. D Expression of leukemia-associated genes for T-ALL (scaled dot plot) across conditions. E GSEA comparing co-cultured ALL cells to mono-cultured. Depicted are the top 10 upregulated hallmark pathways. EMT is revealed as the most upregulated pathway in co-cultures. F Violin plot showing the expression of the EMT signature expression in B- and T-ALL cells for the co-culture, revealing higher EMT activity in B-ALL. G Stacked bar plots showing the proportion of cycling and non-cycling cells in B- and T-ALL for the two conditions, co-culture and in vivo. H GSEA bar plot depicting the top 10 upregulated pathways comparing non-cycling (G1) to cycling cells (G2M and S). I UMAP projections depicting the B-ALL (top, pdx1-pdx4) and T-ALL (bottom, pdx5-pdx6) PDXs, linked to expression of known ALL cell surface markers.

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