Alterations in Intestinal Microbiota Correlate With Susceptibility to Type 1 Diabetes/Experiment 2
From BugSigDB
Needs review
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
- 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
- Autoantibody measurement Autoantibody measurement,autoantibody measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unrelated control (CO)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Seropositive (Ab+) and Seronegative (Ab−)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants with and without autoantibodies.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
- Group 1 sample size Number of subjects in the case (exposed) group
- 38
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, sex, Confounders controlled for: "autoantibody presence" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.autoantibody presence, Confounders controlled for: "Human leukocyte antigens (HLA) genotype" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.Human leukocyte antigens (HLA) genotype
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Table 2, Figure 2 and Supplementary Table 1
Description: Results from Wilcoxon rank-based tests after adjustment for covariates indicating the pairwise comparisons for the genera with a statistically significant difference across the groups.
Abundance in Group 1: increased abundance in Seropositive (Ab+) and Seronegative (Ab−)
| NCBI | Quality Control | Links |
|---|---|---|
| Catenibacterium | ||
| Lactobacillus | ||
| Prevotellaceae | ||
| Staphylococcus | ||
| Thalassospira | ||
| unclassified Bacteroidota | ||
| Rikenellaceae RC9 gut groupRikenellaceae RC9 gut group |
Revision editor(s): Aleru Divine
