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Table 3 The association between Nef functions and dE0 values

From: HIV-1 subtype C Nef-mediated SERINC5 down-regulation significantly contributes to overall Nef activity

Nef functiona

Univariable analysis

Multivariable analysis

Coeff.

SE

p value

Coeff.

SE

p value

CD4 down-regulation

 − 2.22

1.11

0.046

 − 0.31

1.76

0.86

HLA-I down-regulation

 − 1.65

1.12

0.15

 − 1.86

1.50

0.22

Alteration of TCR signalling

0.84

1.21

0.49

1.86

1.14

0.11

SERINC5 down-regulation

 − 2.23

1.09

0.043

 − 1.95

1.36

0.16

  1. dE0 values were derived from the Nef fitness landscape Ising model (only the consensus amino acid present at each residue was modelled explicitly) for each Nef clone and serve as a proxy for in vivo Nef fitness [17]
  2. Coeff., coefficient; SE, standard error
  3. aNef functions were standardised (by subtracting the mean and dividing by the standard deviation) so that coefficients were comparable