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Fig. 2 | BMC Genomics

Fig. 2

From: Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

Fig. 2

Transcriptomic profiling of primary human monocyte-to-macrophage differentiation. a-b Primary human monocytes isolated from donated blood samples were differentiated into monocyte-derived macrophages in vitro, and microarrays were performed with total RNA extracted on time points day 2, day 4, day 7 and day 11. In addition chromatin was isolated for Chip-seq experiments from day 11 macrophages. c Relative expression levels of differentially expressed genes during monocyte-to-macrophage differentiation selected with a FDR cut-off of 0.05 and absolute fold change greater or equal to 2 were clustered and represented as a heatmap. Genes with a positive Z-score are represented in red and negative in green. On the right of the heatmap, the time points where the differentially expressed genes show significant changes are indicated for a comparison between D2 and the remaining time points in different shades of the blue, between D4 and D7 or D11 in yellow or green and between D7 and D11 in red, indicating that most significant expression changes occur already at early time points. d. A Gene ontology analysis for enriched biological processes and KEGG pathways was performed on the differentially expressed genes using DAVID [73]. The top ten gene ontology terms for the biological processes and the top five KEGG pathways are listed. e Relative expression levels of Recon 2 genes with differential expression (absolute fold change greater or equal to 2 and FDR < 0.05) during monocyte-to-macrophage differentiation are represented as a heatmap as in panel c

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