Figure 1

Gene compartmentation and distribution in the GO terms and pathways. (a) Venn diagram showing statistically significant genes (p ≤ 0.05, ≥5/≤-5) in MCF-7 and ZR75-1 compared to NBr. MCF-7 had 366 and ZR75-1 had 367 significant genes, and 77 genes intersecting between the circles were common. (b) In all the GO terms BP, MF, and CC, the gene distribution was higher for MCF-7 cells. Of all GO terms, function MF has the highest gene distribution in both cells. (c) DAVID selected 109 (30%) of 366 genes for MCF-7 cells, and 88 (24%) of 367 genes for ZR75-1 cells for KEGG's pathways, and the rest remained unclassified. The classified genes as shown are distributed in common pathways (oxidative phosphorylation, focal adhesion, insulin signaling, ribosome, proteasome, and glycolysis/gluconeogenesis). The steroid biosynthesis (1%), tight junction and Wnt signaling (0.8%, not shown) were predicted by DAVID for MCF-7. In ZR75-1 cells, highest gene utilization was seen in the oxidative phosphorylation pathway (5.7%), the rest were distributed in the ribosome (10 genes, 2.7%), the pentose phosphate (HMS), and proteasome pathways (1.1%) respectively. BIOCARTA pathway selected two other pathways with 35 (9.5%) genes, unselected by KEGG's pathway. Of these, 4, (1.1%) genes were involved in the MTA-3 in ER(-)ve breast tumor (more prominent in ZR75-1, GSEA), and 3 (0.8%) genes were involved in the glycolysis pathways. (d) GO classification of 77 common genes in MCF-7 and ZR75-1. Percent of coverage represents the percent of genes annotated by DAVID to the GO terms, BP, MF, and CC. Unclassified genes are not shown.