Table 2 Scores for homozygously deleted genes in HGSOC.

From: Characterization of RNF144B and PPP2R2A identified by a novel approach using TCGA data in ovarian cancer

Genes

Chr

Freq (DNA)

Peak size

No of genes

Mut

Freq (RNA)

FC

OS

Lit

Score

PPP2R2A

8p21.2

1

1

1

0

7

0

0

1

11

MAP2K4

17p12

1

0

1

0

7

1

0

1

11

NF1

17q11.2

2

1

1

1

3

1

0

1

10

RB1

13q14.2

2

1

2

1

2

0

0

1

9

LPAR6

13q14.2

2

1

2

0

1

1

0

1

8

FBXO25

8p23.3

2

0

1

0

4

NA

0

1

8

WWOX

16q23.1

1

0

1

0

3

1

1

1

8

CREBBP

16p13.3

1

1

3

1

1

0

0

1

8

ERICH1

8p23.3

2

0

1

0

4

0

0

0

7

TDRP

8p23.3

2

0

1

0

3

NA

0

0

6

ZNF596

8p23.3

2

0

1

0

3

NA

0

0

6

MAPKBP1

15q15.1

1

0

1

0

2

1

0

0

5

RPL23AP53

8p23.3

1

0

1

0

3

NA

0

0

5

LRP1B

2q22.1

1

0

2

1

0

0

0

1

5

CCSER1

4q22.1

1

0

2

0

1

NA

0

1

5

EVI2B

17q11.2

1

1

1

0

1

1

0

0

5

  1. Genes are arranged based on their assigned scores. The genes in the bold font are known tumor suppressors in HGSOC. Tumor suppressor genes in other tumor types are represented in italic font.
  2. Chr chromosome, Freq (DNA) frequency of homozygous deletion, Peak size size of the aberration, No.of Genes number of genes in the chromosomal aberration, Mut frequency of nonsense mutations, Freq (RNA) frequency of down-regulation, FC fold change compared to the normal ovary, OS overall survival, Lit: literature, NA not available. PPP2R2A which is underlined is selected for further analysis. Scoring for each gene is consistent with that outlined in Fig. 1b and the materials and methods section.
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