Metagenomics Analysis of Breast Microbiome Highlights the Abundance of Rothia Genus in Tumor Tissues/Experiment 4
Subjects
- Location of subjects
- Morocco
- 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
- Breast Mamma,Mammary part of chest,Mammary region,Breast,breast
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Luminal A breast carcinoma Luminal A,Luminal A breast cancer,Luminal A breast carcinoma,Luminal A estrogen receptor positive subtype of breast carcinoma,Luminal A subtype of breast carcinoma,luminal A breast carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Adjacent normal tissue of BC patients
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- BC patients with Luminal A
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Breast cancer (BC) patients were pathologically diagnosed with primary BC and underwent surgery for a total or partial mastectomy. Tumor tissue samples were obtained from the cores of Luminal A tumor tissues without any contamination of normal tissues.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
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
- Statistical test
- 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)?
- No
Signature 1
Source: Figure 4. (A)
Description: Individual differences in proportional abundances of significantly altered microbial genus between adjacent and breast tumor tissues in the hormonal patients’ groups. A p < 0.05 is considered statistically significant based on t-test measurements.
Abundance in Group 1: increased abundance in BC patients with Luminal A
| NCBI | Quality Control | Links |
|---|---|---|
| Corynebacterium |
Revision editor(s): Ecsharp
Signature 2
Source: Figure 4. (A)
Description: Individual differences in proportional abundances of significantly altered microbial genus between adjacent and breast tumor tissues in the hormonal patients’ groups. A p < 0.05 is considered statistically significant based on t-test measurements.
Abundance in Group 1: decreased abundance in BC patients with Luminal A
| NCBI | Quality Control | Links |
|---|---|---|
| Lawsonella |
Revision editor(s): Ecsharp
