The nasal and gut microbiome in Parkinson's disease and idiopathic rapid eye movement sleep behavior disorder/Experiment 4
Subjects
- Location of subjects
- Germany
- 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
- REM sleep behavior disorder Rapid eye movement sleep behavior disorder,rapid eye movement sleep behavior disorder,REM Sleep Behavior Disorder,REM sleep behavior disorder,rEM sleep behavior disorder
- 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
- idiopathic rapid eye movement sleep behavior disorder
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Subjects with iRBD diagnosed according to the consensus criteria of the International RBD Study group and no signs for neurodegenerative disorder (by clinical examination and neuropsychological testing).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 78
- Group 1 sample size Number of subjects in the case (exposed) group
- 21
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).
- raw counts
- Statistical test
- DESeq2
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- .05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- intake of diabetes medication
Signature 1
Curated date: 2023/03/14
Curator: Jacquelynshevin
Revision editor(s): Jacquelynshevin, Fatima, WikiWorks
Source: Summarized results of the differential and regression analyses of the gut microbiota:
Description: Differential analyses of the gut microbiome at OTU level (D): The fold change values are displayed in the two innermost heatmaps in G. ** (confirmed by ANCOM) and bold P-values are displayed in Figure 2. Taxa with multiple‐testing adjusted P values below 0.05 (and an absolute log2 fold change > 1 for differential analyses) were defined as significantly differentially abundant or related to a continuous variable, respectively.
Abundance in Group 1: increased abundance in idiopathic rapid eye movement sleep behavior disorder
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerotruncus | ||
| Erysipelotrichaceae incertae sedis | ||
| Flavonifractor | ||
| Gordonibacter | ||
| Lachnospiraceae | ||
| Blautia coccoides |
Revision editor(s): Jacquelynshevin, Fatima, WikiWorks
Signature 2
Source: Summarized results of the differential and regression analyses of the gut microbiota
Description: Differential analyses of the gut microbiome at OTU level (D): The fold change values are displayed in the two innermost heatmaps in G. ** (confirmed by ANCOM) and bold P-values are displayed in Figure 2. Taxa with multiple‐testing adjusted P values below 0.05 (and an absolute log2 fold change > 1 for differential analyses) were defined as significantly differentially abundant or related to a continuous variable, respectively.
Abundance in Group 1: decreased abundance in idiopathic rapid eye movement sleep behavior disorder
Revision editor(s): Jacquelynshevin, Fatima
