Gut microbiome and atrial fibrillation-results from a large population-based study/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-13
Curated date: 2023/10/16
Curator: Iram jamshed
Revision editor(s): ChiomaBlessing, Tolulopeo, Iram jamshed, Chinelsy, Victoria
Subjects
- Location of subjects
- Finland
- 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
- Atrial fibrillation A-fib,AF,AF - Atrial fibrillation,AFib,atrial fibrillation,atrial fibrillation (disease),Atrial fibrillation (disorder),Atrial Fibrillations,Auricular Fibrillation,Auricular Fibrillations,Fibrillation, Atrial,Fibrillation, Auricular,Fibrillations, Atrial,Fibrillations, Auricular,Atrial fibrillation
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Individuals without Incident Atrial Fibrillation (AF)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Individuals with Incident Atrial Fibrillation (AF)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Incident AF refers to new cases of atrial fibrillation that occurred during the follow-up period of the study, among individuals who did not have a history of atrial fibrillation at baseline.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6647
- Group 1 sample size Number of subjects in the case (exposed) group
- 539
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- None.
Lab analysis
- Sequencing type
- WMS
- 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
- 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)
- 0.05
- 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
- age, alcohol consumption measurement, blood pressure, body mass index, diabetes mellitus, total cholesterol measurement, sex, smoking status, Confounders controlled for: "heart failure" 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.heart failure, Confounders controlled for: "antihypertensive medication use" 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.antihypertensive medication use
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-13
Curated date: 2023/10/17
Curator: Iram jamshed
Revision editor(s): Iram jamshed, Tolulopeo, ChiomaBlessing
Source: Figure 2, Table 3
Description: Abundant genera in individuals with Incident Atrial Fibrillation (AF) compared to individuals without Incident AF
Abundance in Group 1: increased abundance in Individuals with Incident Atrial Fibrillation (AF)
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium | ||
| Enorma | ||
| Lactococcus | ||
| Mitsuokella | ||
| Sellimonas |
Revision editor(s): Iram jamshed, Tolulopeo, ChiomaBlessing
Signature 2
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-13
Curated date: 2023/10/17
Curator: Iram jamshed
Revision editor(s): Iram jamshed, Tolulopeo, ChiomaBlessing
Source: Figure 2, Table 3
Description: Abundant genera in individuals with Incident Atrial Fibrillation (AF) compared to individuals without Incident AF
Abundance in Group 1: decreased abundance in Individuals with Incident Atrial Fibrillation (AF)
| NCBI | Quality Control | Links |
|---|---|---|
| Hungatella | ||
| Tyzzerella | ||
| Sanguibacteroides |
Revision editor(s): Iram jamshed, Tolulopeo, ChiomaBlessing
