Oral Microbiota Identifies Patients in Early 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 (if applicable)
- Homo sapiens
- 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
- Early Rheumatoid Arthritis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Early Rheumatoid Arthritis PATIENTS
- Group 0 sample size Number of subjects in the control (unexposed) group
- 59
- 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)
- 3 months
Statistical Analysis
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- .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
- 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
Signature 1
Source: Figure 2, text
Description: (c) Bar graph showing top 20 bacterial species and smoking status influential in the OPLS-DA model and expressed as Variable Importance in Projection (VIP) values with 95% confidence interval. Red colour represents eRA and blue colour healthy controls. For a full list of VIP values see Table S2.
Abundance in Group 1: decreased abundance in Early Rheumatoid Arthritis
NCBI | Links |
---|---|
Oribacterium sinus | |
Catonella morbi | |
Veillonella rogosae | |
Campylobacter concisus |
Revision editor(s): Tislam
Signature 2
Source: Figure 2, text
Description: (c) Bar graph showing top 20 bacterial species and smoking status influential in the OPLS-DA model and expressed as Variable Importance in Projection (VIP) values with 95% confidence interval. Red colour represents eRA and blue colour healthy controls. For a full list of VIP values see Table S2.
Abundance in Group 1: increased abundance in Early Rheumatoid Arthritis
Revision editor(s): Tislam