The HOXB7, HOXB8 and HOXB9 gene expression profiles in breast cancer are contradictory due to disease complexity and technical issues. The data presented here cover these two points by analysing the expression of these genes in breast cancer cell lines representative of distincts molecular subtypes using a very sensitive quantification technique, the qPCR. The cell lines analysed were MCF7, BT474, SKBR3, MDA231, MDA468 and MCF10A representative of Luminal A, Luminal B, HER2+, triple-negative claudin low, triple-negative basal and normal model, respectively. The raw data was accessed by CFX Manager 3.1 software (Bio-Rad) and a threshold line was put into the exponential phase of the amplification curve generating a Cycle Threshold (CT) number for each sample. The CT numbers were transferred to an Excell file to be analysed using the formula: RATIO= E target^ – (CT sample for the target gene) / E reference^ – (CT sample for the reference gene), in which “E” refers to primer efficiencies previously calculated and GAPDH is the reference gene. The statistical analyses were made with Prism 8 using the unpaired T test with Welch’s correction. The data obtained from three independent experiments, showed that HOXB7 tends to be overexpressed in all breast cancer cell lines analysed when compared to the normal cell model, while HOXB8 and HOXB9 are significantly overexpressed only in MCF7, BT474 and MDA231 cells. All genes presented expression levels highly subtype-dependent among breast cancer cell lines.

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