Table 2.

Molecular data of gliomas harboring the PTPRZ1‐ETV1 fusion, detected by immunohistochemistry and amplicon‐based NGS analysis. NA = not available; WT = wild type; MT = mutated; IHC = immunohistochemistry.

Case number	PTPRZ1‐ETV1 fusion detected by NGS RNA‐seq	Read count (threshold >20)	RT‐PCR validation of PTPRZ1‐ETV1 fusion	IDH mutation (NGS)	1p/19 co‐deletion	MGMT promoter methylation	Other variants detected with Oncomine Focus assay	IHC TP53	IHC ATRX
1	Exon 1–exon 5 in‐frame	1795	Exon 1–exon 5	WT	NA	Not methylated	None	NA	WT
2	Exon 1–exon 5 in‐frame	389	Exon 1–exon 5	WT	NA	Methylated	EGFRvIII EGFR amplification	WT	WT
3	Exon 1–exon 5 in‐frame	275	Exon 1–exon 5	WT	NA	Not methylated	None	Questionable	WT
4	Exon 1–exon 5 in‐frame	258	Exon 1–exon 5	R132H	Very likely	Methylated	None	WT	WT
5	Exon 1–exon 5 in‐frame	403	Exon 1–exon 5	R132H	NA	Methylated	PTPRZ1‐MET fusion PDGFRA, CDK6 and CCND1 amplification	MT	MT
			Exon 1–exon 4
6	Exon 1–exon 5 in‐frame	266	Exon 1–exon 5	WT	NA	Methylated	EGFRvIII EGFR amplification mutation in exon 20 of EGFR	WT	WT
7	Exon 1–exon 5 in‐frame	457	Exon 1–exon 5	WT	NA	Not methylated	EGFRvIII EGFR amplification	WT	WT
8	Exon 1–exon 4 in‐frame	480	Exon 1–exon 5	WT	NA	Methylated	METΔ14 PTPRZ1‐MET fusion MET and PDGFRA amplification PDGFRA mutation in exon 18	MT	WT
			Exon 1–exon 4
9	Exon 1–exon 4 in‐frame	462	Exon 1–exon 5	WT	NA	Methylated	EGFRvIII EGFR amplification	WT	WT
10	Exon 1–exon 4 in‐frame	389	No PCR amplification	WT	NA	Methylated	ETV6‐NTRK3 fusion PDGFRA and KIT amplification	WT	WT
11	Exon 1–exon 4 in‐frame	304	No PCR amplification	WT	NA	Not methylated	EGFRvIII EGFR amplification	WT	WT