The Diversity of Gut Microbiome is Associated With Favorable Responses to Anti-Programmed Death 1 Immunotherapy in Chinese Patients With NSCLC/Experiment 1
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
- 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
- Patients in this study were defined as responder (R) (with partial response or stable disease)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- Group 1 sample size Number of subjects in the case (exposed) group
- 23
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
- Kruskall-Wallis
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- increased
Signature 1
Source: Figures 3a,b & c
Description: Comparison of gut microbiota composition between responders (R) and non responders (NR). (A) Heatmap of seven bacterial genera with statistically differential abundance in R (n ¼ 13) and NR (n ¼ 12) at baseline. (B) Histogram of two representative differentially abundant genera at baseline. (C) Histogram of Bifidobacterium longum and Prevotella copri at baseline (left) and T1 timepoint (right). Statistical analysis was performed by Mann-Whitney test. **p < 0.01, * p < 0.05.
Abundance in Group 1: increased abundance in Responders
| NCBI | Quality Control | Links |
|---|---|---|
| Alistipes putredinis | ||
| Bifidobacterium longum | ||
| Lachnobacterium | ||
| Lachnospiraceae | ||
| Segatella copri | ||
| Shigella |
Revision editor(s): Sharmilac
Signature 2
Source: Figure 3a,b,c
Description: Comparison of gut microbiota composition between responders (R) and non responders (NR). (A) Heatmap of seven bacterial genera with statistically differential abundance in R (n ¼ 13) and NR (n ¼ 12) at baseline. (B) Histogram of two representative differentially abundant genera at baseline. (C) Histogram of Bifidobacterium longum and Prevotella copri at baseline (left) and T1 timepoint (right). Statistical analysis was performed by Mann-Whitney test. **p < 0.01, * p < 0.05.
Abundance in Group 1: decreased abundance in Responders
| NCBI | Quality Control | Links |
|---|---|---|
| unclassified Ruminococcus |
Revision editor(s): Sharmilac
