Microbial biomarkers of common tongue coatings in patients with gastric cancer/Experiment 1

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Reviewed Marked as Reviewed by Atrayees on 2023-8-18

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Peace Sandy

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
Tongue Glossus,Tongue,tongue
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Gastric cancer Ca body - stomach,ca greater curvature of stomach,Ca lesser curvature - stomach,cancer of stomach,gastric cancer,gastric cancer, intestinal,gastric neoplasm,malignant gastric neoplasm,malignant gastric tumor,malignant neoplasm of body of stomach,malignant neoplasm of lesser curve of stomach,malignant neoplasm of stomach,malignant neoplasm of the stomach,malignant stomach neoplasm,malignant tumor of body of stomach,malignant tumor of greater curve of stomach,malignant tumor of lesser curve of stomach,malignant tumor of stomach,malignant tumor of the stomach,stomach cancer,Gastric cancer
Group 0 name Corresponds to the control (unexposed) group for case-control studies
other coatings
Group 1 name Corresponds to the case (exposed) group for case-control studies
white-thin tongue coating GC patient
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
gastric cancer with different tongue coatings
Group 0 sample size Number of subjects in the control (unexposed) group
90
Group 1 sample size Number of subjects in the case (exposed) group
25
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
4 weeks

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V5
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
RT-qPCR

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

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 Atrayees on 2023-8-18

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks, Atrayees

Source: Table 1

Description: LEfSe analysis of microbial taxa from tongue coating in GC patients

Abundance in Group 1: increased abundance in white-thin tongue coating GC patient

NCBI Quality ControlLinks
Lautropia
Capnocytophaga leadbetteri
Ampelomyces

Revision editor(s): WikiWorks, Atrayees

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-8-18

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks, Atrayees

Source: Table 1

Description: LEfSe analysis of microbial taxa from tongue coating in GC patients

Abundance in Group 1: decreased abundance in white-thin tongue coating GC patient

NCBI Quality ControlLinks
Stomatobaculum
Megasphaera micronuciformis
Eubacterium sp.
Sporidiobolales
Fusarium equiseti

Revision editor(s): WikiWorks, Atrayees