Decreased microbial co-occurrence network stability and SCFA receptor level correlates with obesity in African-origin women/Experiment 7
From BugSigDB
Needs review
Subjects
- Location of subjects
- Ghana
- 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
- Obesity Adiposis,Adiposity,Obese,Obese (finding),obesity,Obesity (disorder),Obesity [Ambiguous],obesity disease,obesity disorder,Obesity NOS,Obesity, unspecified,Overweight and obesity,Obesity
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- All Lean Women (UL + GL)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- All Obese Women (UO + GO)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants in the All Obese Women (UO + GO) group were women from both America and Ghana with body mass index (BMI) > 25 kg/m2.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 42
- Group 1 sample size Number of subjects in the case (exposed) group
- 58
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).
- raw counts
- Statistical test
- Linear Regression
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- unchanged
Signature 1
Needs review
Source: Figure S4
Description: Sequences with significantly different levels across the groups: GL (Ghana Lean), GO (Ghana Obese), UL (USA Lean), and UO (USA Obese).
Abundance in Group 1: increased abundance in All Obese Women (UO + GO)
| NCBI | Quality Control | Links |
|---|---|---|
| Oscillospiraceae | ||
| Segatella copri | ||
| [Ruminococcus] torques | ||
| Collinsella aerofaciens | ||
| Lachnospiraceae |
Revision editor(s): Aleru Divine
Signature 2
Needs review
Source: Figure S4
Description: Sequences with significantly different levels across the groups: GL (Ghana Lean), GO (Ghana Obese), UL (USA Lean), and UO (USA Obese).
Abundance in Group 1: decreased abundance in All Obese Women (UO + GO)
| NCBI | Quality Control | Links |
|---|---|---|
| Oscillospiraceae | ||
| Bacteroides | ||
| Bacteroides uniformis | ||
| Oscillospira | ||
| Bacteria |
Revision editor(s): Aleru Divine
