Gut microbiome and atrial fibrillation-results from a large population-based study
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
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
- 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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Individuals without Atrial Fibrillation (AF)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Individuals with Atrial Fibrillation (AF)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participant with Atrial Fibrillation. Atrial fibrillation (AF) is an important heart rhythm disorder in aging populations
- 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
- 116
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).
- centered log-ratio
- Statistical test
- Logistic Regression
- 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
- age, sex
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, diabetes mellitus, physical activity, sex, smoking status
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Source: Table 2
Description: Association of Prevalent Atrial Fibrillation microorganism abundance with common genera
Abundance in Group 1: increased abundance in Individuals with Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Desulfovibrio | ||
Eisenbergiella | ||
Enorma | ||
Enterobacter | ||
Kluyvera |
Revision editor(s): Iram jamshed, Tolulopeo
Signature 2
Source: Table 2
Description: Association of micro organism abundance between individuals having Prevalent Arterial Fibrillation and Common Genera.
Abundance in Group 1: decreased abundance in Individuals with Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Bacteroides | ||
Bifidobacterium | ||
Holdemanella | ||
Parabacteroides | ||
Turicibacter |
Revision editor(s): Iram jamshed, Tolulopeo
Experiment 2
Curated date: 2023/10/16
Curator: Iram jamshed
Revision editor(s): Iram jamshed, Tolulopeo, Chinelsy
Subjects
- 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 1 sample size Number of subjects in the case (exposed) group
- 539
Lab analysis
Statistical Analysis
- Statistical test
- DESeq2
- Matched on Factors on which subjects have been matched on in a case-control study
- age, body mass index, sex
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Source: Table 3
Description: Association of micro organism abundance between individuals having Incidence AF and Common Genera.
Abundance in Group 1: increased abundance in Individuals with Incident Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Bifidobacterium | ||
Enorma | ||
Lactobacillus | ||
Lactococcus | ||
Mitsuokella | ||
Sellimonas |
Revision editor(s): Iram jamshed, Tolulopeo
Signature 2
Source: Table 3
Description: Association of micro organism abundance between individuals having Incidence AF and Common Genera.
Abundance in Group 1: decreased abundance in Individuals with Incident Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Eisenbergiella | ||
Hungatella | ||
Sanguibacter | ||
Tyzzerella |
Revision editor(s): Iram jamshed, Tolulopeo
Experiment 3
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Not specified
- Group 0 sample size Number of subjects in the control (unexposed) group
- Not specified
- Group 1 sample size Number of subjects in the case (exposed) group
- 6923
Lab analysis
Statistical Analysis
- Statistical test
- Cox Proportional-Hazards Regression
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, diabetes mellitus, sex
Signature 1
Source: Table 4
Description: Differential abundance of microorganism in incident atrial fibrillation in Cox regression analyses considering the hazard ratio.
Abundance in Group 1: decreased abundance in Individuals with Incident Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Alistipes | ||
Barnesiella | ||
Enterococcus | ||
Odoribacter | ||
Paraprevotella | ||
Sanguibacter |
Revision editor(s): Iram jamshed
Signature 2
Source: Table 4
Description: Differential abundance of microorganism in incident atrial fibrillation in Cox regression analyses considering the hazard ratio.
Abundance in Group 1: increased abundance in Individuals with Incident Atrial Fibrillation (AF)
NCBI | Quality Control | Links |
---|---|---|
Clostridium | ||
Collinsella | ||
Enorma | ||
Solobacterium |
Revision editor(s): Iram jamshed