Vaginal Microbiome Metagenome Inference Accuracy: Differential Measurement Error according to Community Composition/Experiment 1

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Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-30

Curated date: 2023/11/04

Curator: Chinelsy

Revision editor(s): Chinelsy, ChiomaBlessing

Subjects

Location of subjects

United States of America

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

Vagina Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Premature birth Birth, Premature,Birth, Preterm,Births, Premature,Births, Preterm,Premature Births,Preterm Birth,Preterm Births,Premature birth,premature birth

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

term birth(control)

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

preterm birth (PTB)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Cases were participants who experienced early preterm birth at <32 weeks of gestation.

Group 0 sample size Number of subjects in the control (unexposed) group

37

Group 1 sample size Number of subjects in the case (exposed) group

35

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

None.

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V1-V3

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Illumina

Statistical Analysis

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

relative abundances

Statistical test

Mann-Whitney (Wilcoxon)