Fig. 3: Gene expression profiling in longitudinal primary breast tumour biopsies.

a ORR at surgery (V3) (patients with good response to eribulin vs. poor response) (Top). Genes identified have a change corresponding to eribulin treatment. Volcano plots with the strength of the association on the y-axis (−log10 p values) and the effect size on the x-axis (log 2-fold change (FC)). Differentially expressed genes were highlighted during different timepoints across neoadjuvant therapy (V1–V3). Genes above the red dotted line represent those whose expression levels were significantly different (p value < 0.01). A full list of the most up and downregulated genes can be found on Supplementary Data. Boxplots of good and poor responders on eribulin over time, colour-coded by their corresponding poor response (red) or good response (blue) in eribulin from baseline to surgery (Bottom). b Same as in (a). Patients with later clinical recurrence vs. no recurrence (Top). Boxplots of individual patients on eribulin over time, colour-coded by their corresponding recurrence (purple) or nonrecurrence (grey) in eribulin from baseline to surgery (Bottom).