Baseline gut microbiota predicts clinical response and colitis in metastatic melanoma patients treated with ipilimumab/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Subjects
- Location of subjects
- France
- 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
- Response to immunochemotherapy Response to immunochemotherapy,response to immunochemotherapy
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Resistance, Non responders, No colitis
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Responders, Colitis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- MM patients that developed an immune-mediated colitis following ipilimumab treatment
- Group 0 sample size Number of subjects in the control (unexposed) group
- 19
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
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
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 3.5
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Source: Figure 4
Description: Gut microbiota composition at baseline predicts ipilimumab-induced colitis.
Abundance in Group 1: increased abundance in Responders, Colitis
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides ovatus | ||
| Blautia obeum | ||
| Clostridiales bacterium | ||
| Fusicatenibacter saccharivorans | ||
| Gemmiger formicilis | ||
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Roseburia inulinivorans |
Revision editor(s): Fatima
Signature 2
Reviewed Marked as Reviewed by Fatima on 2022/08/24
Source: Figure 4
Description: Gut microbiota composition at baseline predicts ipilimumab-induced colitis
Abundance in Group 1: decreased abundance in Responders, Colitis
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella sp. | ||
| Bacteroides sp. | ||
| Bacteroides uniformis | ||
| Faecalibacterium prausnitzii | ||
| Bacteroides sp. | ||
| Parabacteroides distasonis |
Revision editor(s): Fatima
