Table 1

Comparison of allele frequency between putative deleterious variants and putative tolerated variants

ACE2
SIFT SIFT4G Polyphen2_HDIV Polyphen2_HVAR LRT MutationTaster MutationAssessor FATHMM PROVEAN VEST4 MetaSVM
Deleterious0.00080.00070.00110.00110.00110.00070.0010.00110.0010.00070.0011
Tolerated0.00120.00110.00110.00110.00110.00110.00150.00110.00110.00110.0011
p-value0.06610.17240.79920.23970.59460.13960.06170.0877 0.043 0.15690.9218
MetaLR M-CAP REVEL MutPred MVP MPC PrimateAI DEOGEN2 CADD DANN fathmm-MKL GenoCanyon
0.00120.0010.00110.00060.00110.0010.0006NA0.0010.00110.0010.0011
0.00110.00160.00110.0010.0010.00110.00110.00110.00110.00160.0013
0.23810.0850.9882 0.0365 0.48160.3330.15360.24780.86 0.0497 0.7635
TMPRSS2
SIFT SIFT4G Polyphen2_HDIV Polyphen2_HVAR LRT MutationTaster MutationAssessor FATHMM PROVEAN VEST4 MetaSVM
Deleterious0.00110.00080.00080.00080.00080.00080.00080.00080.00080.00080.0004
Tolerated0.00080.00080.00080.00080.00110.00120.00080.0010.00110.00120.0032
p-value0.99830.40430.33680.2947 0.0026 0.0125 0.33840.41840.1499 0.0042 0.0008
MetaLR M-CAP REVEL MutPred MVP MPC PrimateAI DEOGEN2 CADD DANN fathmm-MKL GenoCanyon
0.00070.00080.00060.00040.00080.00080.00070.00080.00080.00080.0008NA
0.00120.00120.00120.00080.00120.00080.00110.00110.00120.00080.0012
0.0071 0.082 0.0004 0.0766 0.0238 0.5259 0.0179 0.0123 0.0271 0.5279 0.0388
  • The indicated values correspond to median allele frequency. Twenty-three deleteriousness-prediction software are employed in this study. P value is calculated using the Mann-Whitney U test. A probability of p<0.05 is considered statistically significant (values in bold).

  • ACE2, angiotensin-converting enzyme 2; NA, not available; TMPRSS2, transmembrane protease serine 2.