Systematic analysis of the association between gut flora and obesity through high-throughput sequencing and bioinformatics approaches/Experiment 1
From BugSigDB
Needs review
Subjects
- Location of subjects
- Taiwan
- 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
- Normal (N-like group)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Case (OB-like group)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants with a Body Mass Index ≥ 27
- Group 0 sample size Number of subjects in the control (unexposed) group
- 45
- Group 1 sample size Number of subjects in the case (exposed) group
- 36
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
- ANOVA
- Kolmogorov-Smirnov Test
- 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
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- decreased
Signature 1
Needs review
Source: Table 2
Description: Genera with significantly different proportions between normal and case samples.
Abundance in Group 1: increased abundance in Case (OB-like group)
| NCBI | Quality Control | Links |
|---|---|---|
| Acinetobacter | ||
| Halomonas | ||
| Lachnospira | ||
| Megamonas | ||
| Shewanella |
Revision editor(s): Shulamite, Anne-mariesharp
Signature 2
Needs review
Source: Table 2
Description: Genera with significantly different proportions between normal and case samples.
Abundance in Group 1: decreased abundance in Case (OB-like group)
| NCBI | Quality Control | Links |
|---|---|---|
| Erwinia | ||
| Morganella | ||
| Serratia | ||
| Tatumella | ||
| Collinsella | ||
| Barnesiella | ||
| Clostridium | ||
| Coprococcus | ||
| Oscillibacter | ||
| Veillonella | ||
| Citrobacter | ||
| Cronobacter | ||
| Enterobacter | ||
| Escherichia | ||
| Leclercia |
Revision editor(s): Shulamite, Anne-mariesharp
