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Fig. 3 | BMC Microbiology

Fig. 3

From: The vaginal microbiota of women living with HIV on suppressive antiretroviral therapy and its relation to high-risk human papillomavirus infection

Fig. 3

Differentially expressed taxa in women living with HIV and seronegative women with or without HPV infection as determined by Linear Discriminant Analysis Effect Size (LEfSe). Legend: Linear discriminant analysis plots showing differentially discriminant taxa identified in A. WLWH and SNW irrespective of HPV infection; B. HPVN and HPVP women irrespective of HIV status; C. WLWH only; and D. HPVN women only. LEfSe analyses were performed at https://huttenhower.sph.harvard.edu/galaxy/, with the following parameters: LDA threshold 3 or higher, alpha value for factorial Kruskal–Wallis test 0.05 and alpha value for pairwise Wilcoxon test 0.05. The ASV table was filtered prior to LEfSe analysis, removing ASVs not seen more than 5 times in at least 5% of samples, to avoid including ASVs with small means and outliers. Abbreviations: ASVs: amplicon sequences variants, LDA: Linear Discriminant Analysis, HIV: human immunodeficiency virus, HPV: human papillomavirus, HPVP: HPV positive, HPVN: HPV negative, SNW: seronegative women, WLWH: women living with HIV

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