Transition in vaginal Lactobacillus species during pregnancy and prediction of preterm birth in Korean women/Experiment 3
From BugSigDB
Needs review
Subjects
- Location of subjects
- Republic of Korea
- 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
- Posterior fornix of vagina Pars posterior fornicis vaginae,Posterior fornix,Posterior part of fornix of vagina,Posterior fornix of vagina,posterior fornix of vagina
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Birth measurement Birth measurement,birth measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Preterm birth (PTB) is defined as delivery at less than 37 weeks of gestation and accounts for 8% of childbirths in South Korea
- Group 0 sample size Number of subjects in the control (unexposed) group
- 17
- Group 1 sample size Number of subjects in the case (exposed) group
- 37
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
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Fig. 2A
Description: FTB- or PTB-associated microbiome using linear discriminant analysis effect size
Abundance in Group 1: increased abundance in Preterm birth (PTB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
| NCBI | Quality Control | Links |
|---|---|---|
| Finegoldia magna | ||
| Staphylococcus epidermidis | ||
| Pseudescherichia vulneris |
Revision editor(s): KateRasheed, WikiWorks
