Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis/Experiment 5
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-4-4
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
- Pancreas Pancreas,pancreas
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Cancer or benign tumor cell proliferation disorder,neoplasm,Cancer or benign tumor,cancer or benign tumor
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Node Stage (N)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Tumor Stage (T)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The tumor stage was evaluated based on the TNM staging system.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 105
- Group 1 sample size Number of subjects in the case (exposed) group
- 105
Lab analysis
- 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
- 2b-RAD
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- 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)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- body mass index, Confounders controlled for: "Metastasis" 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.Metastasis
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-4-4
Source: Supplementary Figure 2
Description: Differential Microbial taxa between T stage and N stage identified by LefSe.
Abundance in Group 1: increased abundance in Tumor Stage (T)
| NCBI | Quality Control | Links |
|---|---|---|
| Acidovorax | ||
| Faecalibacterium | ||
| Faecalibaculum rodentium | ||
| Friedmanniella | ||
| Staphylococcaceae | ||
| Staphylococcus | ||
| Staphylococcus aureus | ||
| StaphylococcalesStaphylococcales |
Revision editor(s): MyleeeA
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-4-4
Source: Supplementary Figure 2
Description: Differential Microbial taxa between T stage and N stage identified by LefSe.
Abundance in Group 1: decreased abundance in Tumor Stage (T)
Revision editor(s): MyleeeA
