The commensal microbiome is associated with anti-PD-1 efficacy in metastatic melanoma patients/Experiment 3
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mus musculus
- 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
- Response to immunochemotherapy Response to immunochemotherapy,response to immunochemotherapy
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-responders, group B
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Responders, group A
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mouse with 16.SIY melanoma tumor growth
- Group 0 sample size Number of subjects in the control (unexposed) group
- 3
- Group 1 sample size Number of subjects in the case (exposed) group
- 3
Lab analysis
- Sequencing type
- 16S
- 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
- RT-qPCR
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
Signature 1
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Source: Figure 3
Description: Relative abundance in mouse groups A and b of key species validated for quantitative PCR
Abundance in Group 1: increased abundance in Responders, group A
| NCBI | Quality Control | Links |
|---|---|---|
| Collinsella aerofaciens | ||
| Bifidobacterium longum | ||
| Lactobacillus sp. | ||
| Klebsiella pneumoniae | ||
| Parabacteroides merdae |
Revision editor(s): Fatima
Signature 2
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Source: Figure 3
Description: Relative abundance in mouse groups A an B of key species validated for quantitative PCR scoring.
Abundance in Group 1: decreased abundance in Responders, group A
| NCBI | Quality Control | Links |
|---|---|---|
| Roseburia intestinalis |
Revision editor(s): Fatima
