Characterization of vaginal microbiomes in clinician-collected bacterial vaginosis diagnosed samples/Experiment 1

Needs review

Curated date: 2025/03/04

Curator: Miss Lulu

Revision editor(s): Miss Lulu

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Vaginal fluid Vaginal discharge,Vaginal secretion,Vaginal fluid,vaginal fluid

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Bacterial vaginosis BACT VAGINITIDES,BACT VAGINITIS,BACT VAGINOSES,BACT VAGINOSIS,Bacterial Vaginitides,Bacterial Vaginitis,Bacterial Vaginoses,bacterial vaginosis,BV,Nonspecific Vaginitis,VAGINITIDES BACT,Vaginitides, Bacterial,VAGINITIS BACT,Vaginitis, Bacterial,Vaginitis, Nonspecific,VAGINOSES BACT,Vaginoses, Bacterial,VAGINOSIS BACT,Vaginosis, Bacterial,Bacterial vaginosis

Group 0 name Corresponds to the control (unexposed) group for case-control studies: BV-Negative

Group 1 name Corresponds to the case (exposed) group for case-control studies: BV-Positive

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Positive indicates presence of Bacterial Vaginosis

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.001

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool: 1