The role of the gut microbiome on the efficacy of immune checkpoint inhibitors in Japanese responder patients with advanced non-small cell lung cancer/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2022/09/7
Subjects
- Location of subjects
- Japan
- 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
- Non-responders
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Responders
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- We defined responder (R) (partial response to ICI treatment) or non-responder (NR) (stable or progressive disease after ICI treatment at the time of first clinical evaluation) according to the RECIST 1.1 evaluation.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 11
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
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
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Fatima on 2022/09/7
Source: Figure 2
Description: The differential abundant taxa in the gut microbiomes of R (green) and NR (red) was analyzed by linear discriminate analysis coupled with effect size measurements (LEfSe)
Abundance in Group 1: increased abundance in Responders
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridium | ||
| Lactobacillus | ||
| Syntrophococcus | ||
| Lactobacillaceae |
Signature 2
Reviewed Marked as Reviewed by Fatima on 2022/09/7
Source: Figure 2
Description: The differential abundant taxa in the gut microbiomes of R (green) and NR (red) was analyzed by linear discriminate analysis coupled with effect size measurements (LEfSe)
Abundance in Group 1: decreased abundance in Responders
| NCBI | Quality Control | Links |
|---|---|---|
| Bilophila | ||
| Parabacteroides | ||
| Sutterella | ||
| Alphaproteobacteria | ||
| Alcaligenaceae | ||
| Betaproteobacteria | ||
| Burkholderiales | ||
| Porphyromonadaceae |
