Germline Mutation in KIF1Bβ Gene Associated with Loss of Heterozygosity: Usefulness of Next-Generation Sequencing in the Genetic Screening of Patients with Pheochromocytoma

Table 2

DANN pathogenicity score resulting from the simultaneous query of different in silico prediction tools.

DANN version 2014	Score 0.9987
MutationTaster dbNSFP version 4.0	Prediction disease causing	Accuracy 1	Converted rankscore 0.81
Mutation assessor dbNSFP version 4.0	Prediction medium	Score 2.635	Rankscore 0.7711
FATHMM-MKL dbNSFP version 4.0	Coding prediction damaging	Coding score 0.9891	Coding rankscore 0.8853
FATHMM-XF dbNSFP version 4.0	Coding prediction damaging	Coding score 0.8661	Coding rankscore 0.7854
LRT dbNSFP version 4.0	Prediction deleterious	Score 0	Converted rankscore 0.8433
DEOGEN2 dbNSFP version 4.0	Prediction damaging	Score 0.8068	Rankscore 0.9513
EIGEN dbNSFP version 4.0	Prediction pathogenic	Raw coding 0.8034	Raw coding rankscore 0.8632
EIGEN PC dbNSFP version 4.0	Prediction pathogenic	PC raw coding score 0.798	PC raw coding rankscore 0.8966
SIFT dbNSFP version 4.0	Prediction damaging	Score 0.032, 0.03	Converted rankscore 0.4539
SIFT4G dbNSFP version 4.0	Prediction damaging	Score 0.039, 0.04	Converted rankscore 0.5111
PROVEAN dbNSFP version 4.0	Prediction damaging	Score -8.16, -8.3	Converted rankscore 0.9698
REVEL dbNSFP version 4.0	Prediction pathogenic	Score 0.699	Rankscore 0.8928
PrimateAI dbNSFP version 4.0	Prediction damaging	Score 0.8779	Rankscore 0.9367
MetaSVM dbNSFP version 4.0	Prediction damaging	Score 0.186	Rankscore 0.8567
MetaLR dbNSFP version 4.0	Prediction damaging	Score 0.5961	Rankscore 0.8559
FATHMM dbNSFP version 4.0	Prediction tolerated	Score -0.9, -0.81, -0.89	Converted rankscore 0.7489
MVP dbNSFP version 4.0	Prediction uncertain	Score 0.7537	Rankscore 0.7514
MutPred dbNSFP version 4.0		Score 0.66	Rankscore 0.7978

The value range is 0 to 1, with 1 given to the variants predicted to be the most damaging (http://varsome.com/variant/hg19/kif1b%3Ac.4052C>T) (according to Quang et al. 2015, [26]).