Subgingival microbiome in smokers and non-smokers in Korean chronic periodontitis patients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Lwaldron on 2023-4-4
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
- Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-smokers
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smokers
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- A patient was defined as a smoker if he was currently smoking and had been smoking five or more cigarettes a day for at least 10 years.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 36
- Group 1 sample size Number of subjects in the case (exposed) group
- 57
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Patients were excluded if they had received antibiotic therapy within the past 3 months.
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
- Roche454
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2023/03/13
Curator: Atrayees
Revision editor(s): WikiWorks, Lwaldron, Claregrieve1, Atrayees
Source: text, Figure 1, Figure 2, Figure 3
Description: Genera, phylum and species showing differences in relative abundance.
Abundance in Group 1: increased abundance in Smokers
Revision editor(s): WikiWorks, Lwaldron, Claregrieve1, Atrayees
Signature 2
Needs review
Curated date: 2023/03/13
Curator: Atrayees
Revision editor(s): WikiWorks, Claregrieve1, Atrayees, Aiyshaaaa
Source: text, Figure 1, Figure 2, Figure 3
Description: Genera, phylum and species showing differences in relative abundance
Abundance in Group 1: decreased abundance in Smokers
Revision editor(s): WikiWorks, Claregrieve1, Atrayees, Aiyshaaaa
