Needs review
Subjects
- Location of subjects
- China
- 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 , Blood Vaginal discharge,Vaginal secretion,Vaginal fluid,vaginal fluid,Portion of blood,Vertebrate blood,Whole blood,Blood,blood
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Acquired primary ovarian failure acquired premature ovarian failure,acquired primary ovarian failure,Acquired primary ovarian failure
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- POF
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- women with POF
- Group 0 sample size Number of subjects in the control (unexposed) group
- 29
- Group 1 sample size Number of subjects in the case (exposed) group
- 22
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months prior to enrolment
Lab analysis
- Sequencing type
- 16S
- 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
Statistical Analysis
- Statistical test
- LEfSe
- Random Forest Analysis
- Spearman Correlation
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
- Matched on Factors on which subjects have been matched on in a case-control study
- smoking behavior, chronic kidney disease, accute-on-chronic liver failure, age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
- Richness Number of species
- increased
Signature 1
Needs review
Source: Figure 2
Description: Abundance of different taxa using LEfSe analysis
Abundance in Group 1: increased abundance in POF
NCBI | Quality Control | Links |
---|---|---|
Gardnerella | ||
Prevotella | ||
Bacteroides | ||
Sneathia | ||
Dialister | ||
Anaerococcus |
Revision editor(s): Ndruscilla
Signature 2
Needs review
Source: Figure 2
Description: Abundance of different taxa using LEfSe analysis
Abundance in Group 1: decreased abundance in POF
NCBI | Quality Control | Links |
---|---|---|
Lactobacillus |
Revision editor(s): Ndruscilla