Figure 5

Biological processes associated with arsenite-altered DEGs in cells. A) Following PANTHER Pathway analysis, the biological processes linked to genes are illustrated. Each sector of the pie chart represents the total number of genes expressed for each cellular and biological function. Genes were filtered for an absolute value log2 ratio ≥1.2 and a significance value of p ≤ 0.05. B) In depth analyses of the metabolic processes of iAs-target genes. Level 1: Pie chart indicates relative proportions of genes found to be involved in this process. Level 2: Primary metabolic process and genes associated. Level 3a: genes involved in protein metabolic process while Level 3b: Genes involved in the nucleobase metabolic process. C) categoryCompare [34] showing the biological processes (grouped according to gene ontology terms) in which the DEGs (upregulated or downregulated) identified in each of the three conditions (iAs-T, iAs-Rev and iAs-rev-ReTreat) compared to NT. Each node represents a gene ontology (GO) term, and all of the nodes pose KEGG p-value < 0.05 and FDR q-value < 0.05. Color code is shown in the figure legend. Also indicated are processes that go either up or down in the various conditions. When no up or down is placed next to the condition, it means that some genes in this biological process that were up or downregulated. Shown also are significant terms including ‘metabolic processes’ and ‘cell adhesion’ in arsenic treatment (iAs-T and iAs-rev-reTreat), while Mitosis and DNA repair are among the most significant in iAs-rev cells. Tables used for creating this graph are in Additional file 7: Table S4.