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Table 4 Effect of partial randomization of sequence dataset on antigenic site statistics

From: Subtype- and antigenic site-specific differences in biophysical influences on evolution of influenza virus hemagglutinin

Antigenic Sitea pb from aligned sequencesc (pb from resorted sequencesd)
Δabs ΔΔASAtot ΔΔASAnp ΔΔASApol ΔQ
H1 epitope residues vs. randome
Ca2 p < 0.05 (NS) NS (NS) NS (NS) NS (NS) p < 0.05 (p < 0.05)
Sb p < 0.05 (p < 0.01) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
Sa NS (p < 0.05) NS (NS) NS (NS) NS (NS) NS (NS)
H1C p < 0.01 (p < 0.05) NS (NS) NS (NS) NS (NS) NS (NS)
Ca1 NS (NS) NS (p < 0.01) NS (NS) NS (NS) NS (NS)
Cb NS (NS) NS (NS) NS (NS) NS (NS) NS (NS)
H3 epitope residues vs. randomf
A NS (p < 0.05) NS (NS) NS (NS) NS (NS) NS (NS)
B p < 0.05 (p < 0.01) NS (NS) NS (NS) NS (NS) NS (NS)
C NS (NS) NS (NS) NS (NS) NS (NS) NS (NS)
D p < 0.05 (NS) NS (NS) NS (NS) NS (NS) NS (NS)
E NS (NS) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
B HA epitope residues vs. randomg
BA NS (p < 0.01) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
BB1 NS (p < 0.01) NS (NS) NS (p < 0.05) NS (NS) p < 0.001 (p < 0.05)
BB2 NS (p < 0.05) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
BC NS (NS) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
BD NS (NS) NS (NS) NS (NS) NS (NS) p < 0.05 (NS)
BE NS (NS) NS (NS) NS (NS) NS (NS) NS (NS)
  1. aSee Table 2
  2. bProbability determined from comparison of antigenic site residues to randomly selected residues (see below) determined using Kruskal-Wallis ANOVA
  3. cAmino acid sequences aligned using MUSCLE. See Additional file 1 for resultant sequence alignment.
  4. dAntigenic site residues, along with a set of randomly selected residues (below), were extracted from each sequence, then the datasets containing the extracted residues representing each sequence were re-organized and Δabs, ΔΔASAtot, ΔΔASAnp, and ΔQ recalculated for each amino acid in the dataset based on the new arrangement of sequences (see Methods)
  5. eRandomly selected H1 residues: 2, 19, 23, 76, 84, 94, 117, 121, 178, 223, 301, 326
  6. fRandomly selected H3 residues: 12, 72, 111, 123, 139, 179, 222, 289, 312, 328
  7. gRandomly selected influenza B HA residues: 4, 17, 36, 47, 78, 152, 196, 222, 251, 273, 300, 304
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