Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Curated date: 2021/07/04
Curator: Kwekuamoo
Revision editor(s): WikiWorks, LGeistlinger, Claregrieve1, Kwekuamoo, Peace Sandy
Subjects
- Location of subjects
- 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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Control
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- IBS
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Children ages 7-12 who met the Pediatric Rome III criteria for IBS (Table 1). Subtyping of IBS was based on previous recommendations for IBS in adults because no Pediatric Rome subtype criteria exist for children.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 27
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V3
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- PhyloChip
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- 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
- Richness Number of species
- unchanged
Signature 1
Needs review
Source: Figure 2; Supplementary Table 1A
Description: Differential microbial abundance between IBS patients and controls
Abundance in Group 1: increased abundance in IBS
Revision editor(s): Kwekuamoo, Claregrieve1, WikiWorks
Signature 2
Needs review
Source: Figure 2; Supplementary Table 1B
Description: Differential microbial abundance between IBS patients and controls
Abundance in Group 1: decreased abundance in IBS
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Cellulomonadaceae | ||
| Lachnospiraceae | ||
| Paenibacillaceae | ||
| Porphyromonadaceae | ||
| Streptococcaceae | ||
| unclassified Bacteroidota | ||
| Phocaeicola vulgatus |
Revision editor(s): Kwekuamoo, Claregrieve1, WikiWorks
