Alteration of Fecal Microbiota Profiles in Juvenile Idiopathic Arthritis. Associations with HLA-B27 Allele and Disease Status/Experiment 4
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/06/22
Subjects
- Location of subjects
- Italy
- 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
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Juvenile idiopathic arthritis acute juvenile rheumatoid arthritis,Arthritis (juvenile idiopathic),arthritis, juvenile rheumatoid,breast myoepithelial carcinoma,chronic childhood arthritis,JIA,juvenile arthritis,juvenile chronic arthritis,Juvenile chronic arthritis (disorder),juvenile chronic polyarthritis,Juvenile idiopathic arthritis,juvenile idiopathic arthritis,Juvenile idiopathic arthritis (disorder),Juvenile rheumatoid a.,Juvenile Rheumatoid Arthritis,juvenile rheumatoid arthritis,Juvenile rheumatoid arthritis (disorder),Juvenile rheumatoid arthritis NOS (disorder),Juvenile rheumatoid arthritis, NOS,Juvenile seropositive polyarthritis,monarticular juvenile rheumatoid arthritis,pauciarticular juvenile arthritis,pauciarticular onset juvenile chronic arthritis,rheumatoid arthritis, systemic juvenile,systemic juvenile rheumatoid arthritis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- JIA-nERA patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- polyarticular arthritis (JIA-ERA) patients
- Group 0 sample size Number of subjects in the control (unexposed) group
- 29
- Group 1 sample size Number of subjects in the case (exposed) group
- 10
- 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
- V5-V6
- 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
- Mann-Whitney (Wilcoxon)
- 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
- 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
- Chao1 Abundance-based estimator of species richness
- decreased
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/06/22
Source: Figure 1
Description: Differential microbial abundance between JIA-nERA patients and healthy controls
Abundance in Group 1: increased abundance in JIA-nERA patients
| NCBI | Quality Control | Links |
|---|---|---|
| Oscillospiraceae | ||
| Veillonellaceae |
Revision editor(s): Claregrieve1
