Fig. 1: Identification of hybrid ecDNA in HPVOPC using AA and FastViFI and validation of hybrid ecDNA by multi-FISH. | Nature Communications

Fig. 1: Identification of hybrid ecDNA in HPVOPC using AA and FastViFI and validation of hybrid ecDNA by multi-FISH.

From: Inhibition of human-HPV hybrid ecDNA enhancers reduces oncogene expression and tumor growth in oropharyngeal cancer

Fig. 1: Identification of hybrid ecDNA in HPVOPC using AA and FastViFI and validation of hybrid ecDNA by multi-FISH.

Examples of circular hybrid ecDNA suggested by AA results in HMS001 (A and C) and PDX tumor PDX_A (B and D). Multi-FISH using each ecDNA specific probe (green) and HPV specific probe (red) for metaphase spread cells showed overlapping of each probe signal in the same place only in hybrid ecDNA(+) samples (allow in E and F). Hybrid ecDNA(−) cell line SCC154 only showed the red integrated HPV signal in chromosome (arrowhead in G). Control cell line NOKSI did not show any signal (H). Cell nuclei were counterstained with DAPI (blue). Scale bar shows 10 μm. An expanded view of white box in each is shown upper right corner. Each experiment was at least repeated twice with similar results (E–H).

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