Oral microbiota of patients with phenylketonuria: A nation-based cross-sectional study/Experiment 2
From BugSigDB
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
- Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Phenylketonuria Folling disease,Folling's disease,Folling's syndrome,Følling's disease,HPA, non-PKU mild,hyperphenylalaninemia, non-PKU mild,imbecilitus phenylpyruvica,oligophrenia Phenylpyruvica,oligophrenia phenylpyruvica,PAH deficiency,Pah deficiency,pah deficiency,Phenylalanine hydroxylase deficiency,phenylalanine hydroxylase deficiency,phenylalaninemia,phenylketonuria,phenylketonuria, maternal,phenylpyruvic oligophrenia,PKU,Phenylketonuria
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Controls (CTRL-SP)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Phenylketonuria (PKU-SP)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients diagnosed with Phenylketonuria (PKU) and who stimulated Sub gingival plaque samples were gotten from.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 113
- Group 1 sample size Number of subjects in the case (exposed) group
- 96
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- N/A
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- 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).
- 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)?
- Yes
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Richness Number of species
- decreased
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Source: Figure 2(D)
Description: Differential abundant genera in Phenylketonuria (PKU) and Control Subgingival Patients.
Abundance in Group 1: increased abundance in Phenylketonuria (PKU-SP)
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomyces | ||
| Fretibacterium |
Revision editor(s): MyleeeA
Signature 2
Source: Figure 2(D)
Description: Differential abundant genera in Phenylketonuria (PKU) and Control Subgingival Patients.
Abundance in Group 1: decreased abundance in Phenylketonuria (PKU-SP)
| NCBI | Quality Control | Links |
|---|---|---|
| Aggregatibacter | ||
| Capnocytophaga | ||
| Gemella | ||
| Leptotrichia | ||
| Peptostreptococcus |
Revision editor(s): MyleeeA
