Tumor microbiome diversity influences papillary thyroid cancer invasion/Experiment 2

EditHistoryDelete

Mark reviewed

Your review change was submittedDuplicate this ExperimentAdd a new Signature

Needs review

Curated date: 2024/04/24

Curator: Aleru Divine

Revision editor(s): Aleru Divine

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

Thyroid gland Glandula thyroidea,Thyroid,Thyroid gland,thyroid gland

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Papillary thyroid carcinoma papillary cancer of the thyroid,papillary cancer of the thyroid gland,papillary cancer of thyroid,papillary cancer of thyroid gland,papillary carcinoma of the thyroid,papillary carcinoma of the thyroid gland,papillary carcinoma of thyroid,papillary carcinoma of thyroid gland,papillary thyroid cancer,papillary thyroid carcinoma,papillary thyroid gland carcinoma,thyroid gland papillary cancer,thyroid gland papillary carcinoma,thyroid papillary carcinoma,Papillary thyroid carcinoma

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Patients with PTC at clinical stage T1

Group 1 name Corresponds to the case (exposed) group for case-control studies

Patients with PTC at clinical stage T2

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Patients with Papillary thyroid cancer (PTC) at clinical stage T2.

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

29

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).

arcsine square-root

Statistical test

Welch's T-Test

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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness

unchanged

Simpson Estimator of species richness and species evenness: more weight on species evenness

unchanged

Richness Number of species

unchanged