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Table 1 Mutation severity prediction score thresholds used for each method, based on stabilisation of group numbers above the recommended deleterious threshold

From: Associating mutations causing cystinuria with disease severity with the aim of providing precision medicine

Method

Standard Deleterious Threshold

Threshold for Mutation Severity Score of 1

Threshold for Mutation Severity Score of 2

SIFT

Score < 0.05

Score > 0.025

Score ≤ 0.025

PolyPhen2

Score ≥ 0.5

Score < 0.80

Score ≥ 0.80

Mutation Assessor

Score > 1.9

Score < 2.7

Score ≥ 2.7

FATHMM

Score ≤ −1.5

Score ≥ −8.5

Score < −8.5

Condel

Score > 0.522

Score ≤ 0.672

Score > 0.672

CADD

Score ≥ 15

Score < 27.5

Score ≥ 27.5