Gut microbiota patterns associated with duration of diarrhea in children under five years of age in Ethiopia/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- Ethiopia
- 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
- Diarrhea Diarrhea,Diarrhoea,Watery stool,diarrhea
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-diarrheal controls.
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Diarrhea
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The aim of our study was to decipher what differentiates the GM of children with diarrhea (AD and ProPD) from healthy controls
- Group 0 sample size Number of subjects in the control (unexposed) group
- 663
- Group 1 sample size Number of subjects in the case (exposed) group
- 650
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
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- Matched on: "frequency" 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.frequency
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- breast feeding
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Richness Number of species
- increased
Signature 1
Source: Figure 4a
Description: Diarrhea cases compared with non-diarrheal controls
Abundance in Group 1: increased abundance in Diarrhea
| NCBI | Quality Control | Links |
|---|---|---|
| Escherichia sp. | ||
| Campylobacter sp. | ||
| Streptococcus sp. | ||
| Haemophilus parainfluenzae |
Revision editor(s): Miss Lulu
Signature 2
Source: Figure 4a
Description: Diarrhea cases compared with non-diarrheal controls
Abundance in Group 1: decreased abundance in Diarrhea
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides fragilis | ||
| Prevotella corporis | ||
| Faecalibacterium prausnitzii | ||
| Dialister succinatiphilus |
Revision editor(s): Miss Lulu
