Table 1 Scores for amplified genes in HGSOC.

Genes	Chr	Freq (DNA)	Peak size	No of genes	Freq (RNA)	Fc	Os	Lit	Score
CCNE1	19q12	5	1	3	1	3	0	1	14
MECOM	3q26.2	5	1	3	1	1	0	1	12
BRD4	19p13.12	3	1	2	3	1	1	1	12
MYC	8q24.21	7	0	1	1	0	0	1	10
PVT1	8q24.21	7	0	1	0	1	0	1	10
RNF144B	6p22.3	2	1	3	2	NA	1	1	10
KRAS	12p12.1	3	0	1	2	2	0	1	9
BCAT1	12p12.1	3	0	1	2	2	0	1	9
GOLPH3L	1q21.3	2	1	1	3	1	0	1	9
EPHX3	19p13.12	3	1	2	1	1	1	0	9
HEYL	1p34.2	3	1	1	1	1	0	1	8
MCL1	1q21.2	2	1	1	1	2	0	1	8
HORMAD1	1q21.3	2	1	1	3	NA	0	1	8
GAB2	11q14.1	3	0	1	1	1	0	1	7
INTS4	11q14.1	3	0	1	3	NA	0	0	7
GTPBP4	10p15.3	1	0	1	3	2	0	0	7
PABPC4	1p34.3	3	1	1	1	1	0	0	7
MACF1	1p34.3	3	1	1	1	1	0	0	7
HPCAL4	1p34.3	3	1	1	1	1	0	0	7
CTSS	1q21.3	2	1	1	1	1	0	1	7
ENSA	1q21.3	2	1	1	2	1	0	0	7
WHSC1	4p16.3	1	1	1	1	2	0	1	7
TACC3	4p16.3	1	1	1	1	2	0	1	7
NDUFC2	11q14.1	3	0	1	1	1	0	0	6
ALG8	11q14.1	2	0	1	2	1	0	0	6
KCTD21	11q14.1	3	0	1	2	NA	0	0	6
LYRM5	12p12.1	3	0	1	2	NA	0	0	6
PDE11A	2q31.2	1	1	2	1	1	0	0	6
WDR37	10p15.3	1	0	1	2	1	1	0	6
LARP4B	10p15.3	1	0	1	2	1	0	1	6
KAT6A	8p11.21	1	0	1	2	0	1	1	6
PLB1	2p23.2	1	1	2	1	1	0	0	6
BMP8A	1p34.3	3	1	1	1	NA	0	0	6
NT5C1A	1p34.2	3	1	1	1	NA	0	0	6
ECM1	1q21.2	2	1	1	1	0	0	1	6
ADAMTSL4	1q21.2	2	1	1	1	1	0	0	6
FGFR3	4p16.3	1	1	1	1	1	0	1	6
NELFA	4p16.3	1	1	1	2	1	0	0	6

Genes are arranged based on their assigned scores. The genes in the bold font are known oncogenes in HGSOC. Oncogenes in other tumor types are represented in italic font. The table also lists the novel genes identified.
Chr chromosome, Freq (DNA) frequency of amplification, Peak size size of the aberration, No.of Genes number of genes in the chromosomal aberration, Mut frequency ofnonsense mutations, Freq (RNA) frequency of overexpression, FC fold change compared to the normal ovary, OS overall survival, Lit literature, NA not available. RNF144B which is underlined is selected for further analysis. Scoring for each gene is consistent with that outlined in Fig. 1a and the materials and methods section.

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