Trans-ethnic gut microbiota signatures of type 2 diabetes in Denmark and India/Experiment 3
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-4
Subjects
- 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
- Population Population,population
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Indians (normoglycaemic controls and T2D patients)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Denmark (normoglycaemic controls and T2D patients)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Gut microbiota in Denmark participants
- Group 0 sample size Number of subjects in the control (unexposed) group
- 294
- Group 1 sample size Number of subjects in the case (exposed) group
- 279
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 4 months (Denmark participants)
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V5
- 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).
- raw counts
- Statistical test
- DESeq2
- 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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, Confounders controlled for: "sulfonyl urea" 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.sulfonyl urea, Confounders controlled for: "statin" 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.statin, proton-pump inhibitor, sex
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-1-4
Source: Supplemental Table S2b
Description: Differentially abundant taxa in the gut microbiome between Danes and Indians (normoglycaemic controls and T2D patients)
Abundance in Group 1: increased abundance in Denmark (normoglycaemic controls and T2D patients)
Revision editor(s): ChiomaBlessing, Joan Chuks
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-1-4
Source: Supplemental Table S2b
Description: Differentially abundant taxa in the gut microbiome between Danes and Indians (normoglycaemic controls and T2D patients)
Abundance in Group 1: decreased abundance in Denmark (normoglycaemic controls and T2D patients)
Revision editor(s): ChiomaBlessing
