Periodontal disease and the oral microbiota in new-onset rheumatoid arthritis
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Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
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
- Subgingival dental plaque Subgingival plaque,Subgingival dental plaque
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- arthritis arthritic joint disease,arthritides,arthritis,inflammation of skeletal joint,inflammatory disorder of joint,skeletal joint inflammation
- 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
- Rheumatoid Arthritis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Rheumatoid Arthritis patients
- Group 0 sample size Number of subjects in the control (unexposed) group
- 18
- Group 1 sample size Number of subjects in the case (exposed) group
- 65
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- 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
- Statistical test
- T-Test
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- age, ethnic group, sex
Signature 1
Source: Table 2
Description: Oral microbiota differ significantly among patients with new-onset rheumatoid arthritis (NORA), patients with chronic rheumatoid arthritis (CRA), and healthy control participants, and between individuals with healthy gingiva versus periodontal diseases (PD), at the level of both genus and species/operational taxonomic unit (OTU).
Abundance in Group 1: increased abundance in Rheumatoid Arthritis
NCBI | Quality Control | Links |
---|---|---|
Anaeroglobus | ||
Capnocytophaga | ||
Corynebacterium | ||
Leptotrichia | ||
Prevotella | ||
Selenomonas |
Revision editor(s): Tislam
Signature 2
Source: Table 2
Description: Oral microbiota differ significantly among patients with new-onset rheumatoid arthritis (NORA), patients with chronic rheumatoid arthritis (CRA), and healthy control participants, and between individuals with healthy gingiva versus periodontal diseases (PD), at the level of both genus and species/operational taxonomic unit (OTU).
Abundance in Group 1: decreased abundance in Rheumatoid Arthritis
NCBI | Quality Control | Links |
---|---|---|
Corynebacterium |
Revision editor(s): Tislam