Alterations in the gut microbiota and metabolite profiles of thyroid carcinoma patients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/1
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
- Thyroid carcinoma cancer of the thyroid,cancer of thyroid,carcinoma of the thyroid,carcinoma of the thyroid gland,carcinoma of thyroid,carcinoma of thyroid gland,head and neck cancer, thyroid,thyroid cancer,thyroid carcinoma,thyroid gland cancer,thyroid gland carcinoma,Thyroid carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- patients with thyroid carcinoma
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- at least one solid lesion identified by thyroid ultrasonagraphy
- Group 0 sample size Number of subjects in the control (unexposed) group
- 35
- Group 1 sample size Number of subjects in the case (exposed) group
- 30
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)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 3
- Matched on Factors on which subjects have been matched on in a case-control study
- age, body mass index, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/1
Source: Figure 2a
Description: Differential microbial abundance between healthy controls and thyroid carcinoma patients
Abundance in Group 1: increased abundance in patients with thyroid carcinoma
Revision editor(s): Claregrieve1, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/1
Curated date: 2021/01/10
Curator: Rimsha Azhar
Revision editor(s): Lwaldron, Claregrieve1, WikiWorks
Source: Figure 2a
Description: Differential microbial abundance between healthy controls and thyroid carcinoma patients
Abundance in Group 1: decreased abundance in patients with thyroid carcinoma
Revision editor(s): Lwaldron, Claregrieve1, WikiWorks
