Characterization of gut microbiota in patients with primary hepatocellular carcinoma received immune checkpoint inhibitors: A Chinese population-based study/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2023-12-21
Curated date: 2022/07/15
Curator: Sharmilac
Revision editor(s): WikiWorks, LGeistlinger, Fatima, Sharmilac, Peace Sandy, ChiomaBlessing
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 the clinical response group treated by immune checkpoint inhibitors therapy (defined by radiographic evidence of complete response, partial response or stable disease per RECIST 1.1 criteria for at least 6 months)
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Fatima on 2022/08/17
Source: Figure 1b
Description: Compositional differences in the gut microbiome are associated with responses to anti-PD-1 immunotherapy.
Abundance in Group 1: increased abundance in Responders
Signature 2
Reviewed Marked as Reviewed by Fatima on 2022/08/17
Source: Figure 1b
Description: Compositional differences in the gut microbiome are associated with responses to anti-PD-1 immunotherapy.
Abundance in Group 1: decreased abundance in Responders
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidales | ||
| Bacteroidota | ||
| Bacteroidia | ||
| Collinsella stercoris | ||
| Bacteroides mediterraneensis | ||
| Oleidesulfovibrio alaskensis | ||
| Prevotella histicola | ||
| Gardnerella vaginalis | ||
| Gardnerella |
