Table 4.

Newly-identified CNAs (deletions) contain known oncogenes in cases only.

Query Position	Gene Name	Gene ID	Length (bp)	Deletions in Different Diagnostic Groups
chr4:1694786–1937978	WHSC1	7468	243,193	ref (0), I (1), II (0), III (3), SCC (1)
chr4:1937978–2141625	WHSC1	7468	203,648	ref (0), I (1), II (0), III (3), SCC (1)
chr19:6194240–6239714	MLLT1	4298	45,475	ref (0), I (2), II (0), III (2), SCC (1)
chr19:6239714–6598484	MLLT1	4298	358,771	ref (0), I (2), II (0), III (2), SCC (1)
chr19:6679537–6796128	VAV1	7409	116,592	ref (0), I (2), II (0), III (1), SCC (1)
chr19:6796128–6883617	VAV1	7409	87,490	ref (0), I (2), II (0), III (1), SCC (1)

Wolf-Hirschhorn syndrome candidate 1 (WHSC1); myeloid/lymphoid leukemia; translocated to 1 (MLLT1); vav guanine nucleotide exchange factor 1 (VAV1).