Computational protocol: Selective reduction of IFN-γ single positive mycobacteria-specific CD4+ T cells in HIV-1 infected individuals with latent tuberculosis infection

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Protocol publication

[…] Cells were acquired on a BD Fortessa and analyzed using FlowJo (TreeStar) and Pestle and Spice software. A positive cytokine response was defined as at least twice the background and data are reported after background subtraction. The gating strategy is presented in . For statistical analysis of Spice data, we used the statistic tools integrated in the software, where the applied test has the ability to compare multi-component measurements by reducing the comparison to a single test rather than comparing individual components that would require a correction for multiple comparisons . All other statistical comparisons were performed in GraphPad Prism. Univariate statistics were applied and no adjustments were made for multiple comparisons. Non-parametric tests were used for all comparisons (Mann–Whitney U, Wilcoxon Signed Rank or Kruskal–Wallis ANOVA tests). Correlations were performed using the Spearman Rank test. A P-value of <0.05 was considered statistically significant. […]

Pipeline specifications

Software tools FlowJo, SPICE
Application Flow cytometry
Organisms Corynebacteriales
Diseases Tuberculosis, HIV Infections, Latent Tuberculosis