Gut microbiome features associate with immune checkpoint inhibitor response in individuals with non-melanoma skin cancers: an exploratory study/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-4-3
Subjects
- Location of subjects
- United States of America
- 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 immune checkpoint inhibitor response to ICI,Response to immune checkpoint inhibitor,response to immune checkpoint inhibitor
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Cutaneous squamous cell carcinoma Non-responders (CSCC NR)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Cutaneous squamous cell carcinoma Responders (CSCC R)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- This group comprises individuals with Cutaneous squamous cell carcinoma who are responders to Immune checkpoint inhibitor (ICI) therapy.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 9
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)
- 0.1
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-4-3
Source: Fig. 2A
Description: Differential abundance analysis performed by linear discriminant analysis effect size (LEfSe) using the first fecal sample for each individual collected within 180 days in CSCC.
Abundance in Group 1: increased abundance in Cutaneous squamous cell carcinoma Responders (CSCC R)
Revision editor(s): Joiejoie
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-4-3
Source: Fig. 2A
Description: Differential abundance analysis performed by linear discriminant analysis effect size (LEfSe) using the first fecal sample for each individual collected within 180 days in CSCC.
Abundance in Group 1: decreased abundance in Cutaneous squamous cell carcinoma Responders (CSCC R)
| NCBI | Quality Control | Links |
|---|---|---|
| Bilophila | ||
| Bilophila wadsworthia | ||
| Bacteroides stercoris |
Revision editor(s): Joiejoie
