Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Subjects
- Location of subjects
- Slovenia
- 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
- Oral cavity Bucca,Buccal cavity,Cavity of mouth,Oral cavity,oral cavity
- 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 (TB)
- 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
- Spontaneous onset of preterm labor (≤36 6/7 weeks) due to various causes, including spontaneous contractions, preterm premature rupture of membranes (PPROM), intrauterine infection, cervical insufficiency, and others
- Group 0 sample size Number of subjects in the control (unexposed) group
- 91
- Group 1 sample size Number of subjects in the case (exposed) group
- 61
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Week before inclusion
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).
- raw counts
- Statistical test
- DESeq2
- 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)?
- Yes
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Source: Figure 4
Description: Differential relative abundance of oral bacteria in term vs. preterm delivery groups
Abundance in Group 1: increased abundance in Preterm birth (PTB)
| NCBI | Quality Control | Links |
|---|---|---|
| Capnocytophaga | ||
| Veillonella | ||
| Veillonella massiliensis | ||
| Prevotella_7Prevotella_7 |
Revision editor(s): Ayibatari, Scholastica
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Source: Figure 4
Description: Differential relative abundance of oral bacteria in term vs. preterm delivery groups
Abundance in Group 1: decreased abundance in Preterm birth (PTB)
Revision editor(s): Scholastica
