Predicting the Role of the Human Gut Microbiome in Constipation Using Machine-Learning Methods: A Meta-Analysis/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-4-9
Subjects
- Location of subjects
- Australia
- China
- Poland
- United Kingdom
- 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
- Constipation Constipation,Costiveness,Dyschezia,constipation
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Constipation patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients clinically diagnosed of constipation by evaluating the stool form and the associated persistent bowel symptoms, such as the Bristol Stool Form Scale and the Rome IV criteria
- Group 0 sample size Number of subjects in the control (unexposed) group
- 2138
- Group 1 sample size Number of subjects in the case (exposed) group
- 918
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- 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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Richness Number of species
- unchanged
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- increased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-4-9
Source: Figure 4D
Description: The balance selected genera that significantly differed between the two groups
Abundance in Group 1: increased abundance in Constipation patients
| NCBI | Quality Control | Links |
|---|---|---|
| Agathobacter | ||
| Alloscardovia | ||
| Brachybacterium | ||
| Caulobacter | ||
| Eremococcus | ||
| Parolsenella | ||
| Rahnella | ||
| uncultured Oscillospiraceae bacterium | ||
| Lachnospiraceae |
Revision editor(s): Nithya, Anne-mariesharp, KateRasheed
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-4-9
Source: Figure 4D
Description: The balance selected genera that significantly differed between the two groups
Abundance in Group 1: decreased abundance in Constipation patients
Revision editor(s): Nithya, Anne-mariesharp
