Fig. 5: Visualization of differential gene expression comparing tumors with and without the HMGA2-NCOR2 gene fusion. | Modern Pathology

Fig. 5: Visualization of differential gene expression comparing tumors with and without the HMGA2-NCOR2 gene fusion.

From: Recurrent novel HMGA2-NCOR2 fusions characterize a subset of keratin-positive giant cell-rich soft tissue tumors

Fig. 5

A Principal component analysis based on the normalized gene expression levels of 100 genes from the 507 gene panel with the highest variability of expression among the whole cohort. Note that the tumors show distinct clustering correlating to the presence (blue dots) or absence (red dots) of the HMGA2-NCOR2 gene fusion. Each dot represents a single case. B Cluster analysis and heatmap visualization of five tumors with HMGA2-NCOA2 gene fusion (blue) compared to seven tumors without HMGA2-NCOA2 gene fusion (red), based on the expression of 126 significantly differentially expressed genes. Note the homogenous gene expression pattern between both groups. Each row represents a gene and each column represents a tumor, with the normalized gene expression level indicated by color code. C–E Normalized read counts for the genes TMPRSS2, CCND3, and RUNX1 that were significantly higher expressed in the HMGA-NCOR2 fusion-positive tumors. F–H Normalized read counts for the genes FGFR1, FGFR3, and AR that were significantly higher expressed in the HMGA-NCOR2 fusion negative tumors. Each dot represents a single tumor.

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