Computational protocol: Anti-neuraminidase antibodies against pandemic A/H1N1 influenza viruses in healthy and influenza-infected individuals

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Protocol publication

[…] Multiple alignments and the identity analysis of the NA amino acid sequences from various A/H1N1 influenza viruses were carried out using the GeneDoc program, version 2.6.002. The amino acid sequences of the NA proteins were obtained from GenBank and the Global Initiative on Sharing All Influenza Data (GISAID) database. Nucleotide sequences used in this study are available under the following accession numbers: FJ984386, KF648099, KU509643.1, AF250356, CY033624, AB671290, CY022071, EU124136, CY058489, CY044367, CY022351, AF250363, CY061831, GU984385, GU367316, GQ183619, CY050881, HM189306, GU984412, FJ798780, EU045389, GQ484356. Computer analysis was carried out using UGENE software from Unipro (Russia, Novosibirsk) []. [...] Data were analyzed using Statistica software, version 6.0 (StatSoft Inc., USA). The antibody titers were expressed as log2 of the inversed final dilution for statistical analysis. Geometric mean titers (GMT), medians (Me) and lower and upper quartiles (Q1; Q3) were calculated and used to represent the antibody levels. Comparisons of two independent groups were made with nonparametric Kolmogorov-Smirnov 2-sample test. To compare multiple independent groups, we used a Kruskal-Wallis analysis of variance (ANOVA) with subsequent multiple pairwise comparisons based on Kruskal-Wallis sums of ranks. Comparisons of two dependent variables were performed using Wilcoxon matched pairs test. Fisher exact 2-tailed test was performed in case of nominal variables. Non-parametric measure of statistical dependence between 2 variables was done using Spearman’s rank correlation coefficient (r). The P-value < 0.05 was considered to be statistically significant. […]

Pipeline specifications

Software tools Unipro UGENE, Statistica
Applications Miscellaneous, Sanger sequencing
Organisms Viruses, Homo sapiens