Trans-ethnic gut microbiota signatures of type 2 diabetes in Denmark and India/Experiment 4

Reviewed Marked as Reviewed by Folakunmi on 2024-1-4

Curated date: 2023/11/05

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing, Folakunmi, Fiddyhamma

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: Metformin 1,1-Dimethylbiguanide,C4H11N5,CN(C)C(=N)NC(N)=N,InChI=1/C4H11N5/c1-9(2)4(7)8-3(5)6/h1-2H3,(H5,5,6,7,8)/f/h5,7-8H,6H2,InChIKey=XZWYZXLIPXDOLR-WXQAPKLBCT,Metformin,N,N-dimethylimidodicarbonimidic diamide,metformin

Group 0 name Corresponds to the control (unexposed) group for case-control studies: metformin-naive type 2 diabetes (T2D) patients

Group 1 name Corresponds to the case (exposed) group for case-control studies: metformin-treated T2D patients

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: T2D patients treated with the anti-hyperglycemic drug, metformin

Group 0 sample size Number of subjects in the control (unexposed) group: 132

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)

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

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: raw counts

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, sex, proton-pump inhibitor, 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, geographic area