Dysbiosis of gut microbiota and its correlation with dysregulation of cytokines in psoriasis patients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-6-17
Curated date: 2024/03/26
Curator: PraiseAgbetuyi
Revision editor(s): WikiWorks, Scholastica, KwennB, PraiseAgbetuyi
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
- Psoriasis Other and unspecified pityriasis,OTHER PSORIASIS,Other psoriasis and similar disorders,Other psoriasis and similar disorders (disorder),Other psoriasis and similar disorders excluding psoriatic arthropathy,Palmoplantaris Pustulosis,PITYRIASIS NEC & NOS,PSORIAS RELATED DIS NEC,Psoriases,psoriasis,Psoriasis and similar disorders,Psoriasis and similar disorders (disorder),Psoriasis and similar disorders (navigational concept),Psoriasis and similar disorders NOS,Psoriasis and similar disorders NOS (disorder),Pustular Psoriasis of Palms and Soles,PUSTULAR PSORIASIS OF PALMS SOLES,Pustulosis of Palms and Soles,PUSTULOSIS OF PALMS SOLES,Pustulosis Palmaris et Plantaris,Psoriasis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Control (HC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Psoriasis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with a clinical diagnosis of psoriasis who were attending a dermatology outpatient clinic in the Second Affiliated Hospital of Xi ‘an Jiaotong University, among them 24 were diagnosed with psoriasis vulgaris (PV), 6 with pustular psoriasis (PP).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 30
- Group 1 sample size Number of subjects in the case (exposed) group
- 30
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
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
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2.00
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-6-17
Source: Figure 2 e/f
Description: Differentially abundant taxa between the psoriasis group (P) and healthy control group (N) which was generated from LEfSe analysis
Abundance in Group 1: increased abundance in Psoriasis
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium | ||
| Gemmiger | ||
| Megamonas | ||
| Pyramidobacter | ||
| Synergistales | ||
| Synergistes | ||
| Synergistia | ||
| Veillonellaceae | ||
| Dethiosulfovibrionaceae |
Revision editor(s): PraiseAgbetuyi, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-6-17
Source: Figure 2 e/f
Description: Differentially abundant taxa between the psoriasis group (P) and healthy control group (N) which was generated from LEfSe analysis
Abundance in Group 1: decreased abundance in Psoriasis
| NCBI | Quality Control | Links |
|---|---|---|
| Fusobacterium | ||
| Fusobacteriaceae | ||
| Bacteroidaceae | ||
| Bacteroides |
Revision editor(s): PraiseAgbetuyi, WikiWorks
