Targeted Analysis of the Gut Microbiome for Diagnosis, Prognosis and Treatment Individualization in Pediatric Inflammatory Bowel Disease/Experiment 4
Subjects
- Location of subjects
- Norway
- 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
- Phenotype Phenotype,phenotype
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Crohn's Disease patients with inflammatory phenotypes
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Crohn's Disease patients with stricturing and/or penetrating phenotypes
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients under 18 diagnosed with Crohn's Disease with stricturing and/or penetrating phenotypes
- Group 0 sample size Number of subjects in the control (unexposed) group
- 53
- Group 1 sample size Number of subjects in the case (exposed) group
- 27
Lab analysis
- Sequencing type
- PCR
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- RT-qPCR
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
Signature 1
Source: Section 3.4 (text)
Description: The CD patients had a significantly lower abundance for five bacterial species and a higher abundance for five bacterial species. The CD patients with stricturing and/or penetrating phenotypes had a lower abundance of four species and a higher abundance of Escherichia coli (p = 0.010) compared to the CD patients with an inflammatory phenotype.
Abundance in Group 1: decreased abundance in Crohn's Disease patients with stricturing and/or penetrating phenotypes
| NCBI | Quality Control | Links |
|---|---|---|
| Christensenella minuta | ||
| [Clostridium] scindens | ||
| Lachnospira eligens | ||
| Roseburia hominis |
Revision editor(s): Yjung24
Signature 2
Source: Section 3.4 (text)
Description: The CD patients had a significantly lower abundance for five bacterial species and a higher abundance for five bacterial species. The CD patients with stricturing and/or penetrating phenotypes had a lower abundance of four species and a higher abundance of Escherichia coli (p = 0.010) compared to the CD patients with an inflammatory phenotype.
Abundance in Group 1: increased abundance in Crohn's Disease patients with stricturing and/or penetrating phenotypes
| NCBI | Quality Control | Links |
|---|---|---|
| Escherichia coli |
Revision editor(s): Yjung24
