Identifying microbial signatures for patients with postmenopausal osteoporosis using gut microbiota analyses and feature selection approaches/Experiment 1
From BugSigDB
< Identifying microbial signatures for patients with postmenopausal osteoporosis using gut microbiota analyses and feature selection approaches(Redirected from Identifying microbial signatures for patients with postmenopausal osteoporosis using gut microbiota analyses and feature selection approaches/Experiment 1)
Reviewed Marked as Reviewed by Folakunmi on 2023-12-21
Subjects
- Location of subjects
- China
- 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
- Postmenopausal osteoporosis Bone Loss, Perimenopausal,Bone Loss, Postmenopausal,Bone Losses, Perimenopausal,Bone Losses, Postmenopausal,bone mineral density quantitative trait locus,Osteoporoses, Post-Menopausal,Osteoporoses, Postmenopausal,Osteoporosis, Post Menopausal,Osteoporosis, Post-Menopausal,Osteoporosis, Postmenopausal,osteoporosis, postmenopausal,Perimenopausal Bone Loss,Perimenopausal Bone Losses,Post-Menopausal Osteoporoses,Post-Menopausal Osteoporosis,Postmenopausal Bone Loss,Postmenopausal Bone Losses,Postmenopausal Osteoporoses,postmenopausal osteoporosis,Postmenopausal osteoporosis
- 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
- Postmenopausal osteoporosis (PMOP) patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with Postmenopausal osteoporosis (PMOP)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 37
- Group 1 sample size Number of subjects in the case (exposed) group
- 21
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Subjects who were on antibiotics one (1) month preceding the sample collection were excluded from the study
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2023-12-21
Source: Table S2, Figure 1
Description: Gut microbiota compositions between healthy controls and patients with postmenopausal osteoporosis (PMOP)
Abundance in Group 1: increased abundance in Postmenopausal osteoporosis (PMOP) patients
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2023-12-21
Source: Table S2
Description: Gut microbiota compositions and statistical results between healthy controls and patients with postmenopausal osteoporosis (PMOP)
Abundance in Group 1: decreased abundance in Postmenopausal osteoporosis (PMOP) patients
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides eggerthii | ||
| Oscillospiraceae |
