Identifying collateral and synthetic lethal vulnerabilities within the DNA-damage response

BMC Bioinformatics

Table 3 Summary of the prediction for 7 DDR genes

Gene	HDMI	Pairs	garpDD	garpALT
PTEN	0.040	71	49/66	54/67
TP53	0.025	51	33/43	40/50
BRCA2	0.030	34	0/00	30/34
ATM	0.020	26	18/24	21/24
CDH1	0.025	33	16/32	18/32
RB1	0.040	52	44/52	45/52
MSH3	0.025	18	8/13	17/18

All the results refer to a p value < 0.05. HDMI reports the threshold used for the HDMI between the groups; pairs is the count of groups found to be in mutual exclusion with the group of the corresponding DDR gene; garpDD is the number of pairs for which at least a pair of genes has been validated considering only cell lines with deep deletion, divided by the number of group pairs for which data for the validation are available; garpALT as previous, but also considering somatic mutations

ISSN: 1471-2105