The biodiversity Composition of Microbiome in Ovarian Carcinoma Patients/Experiment 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
- Uterus Uterus,uterus
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Ovarian cancer cancer of ovary,cancer of the ovary,malignant neoplasm of ovary,malignant neoplasm of the ovary,malignant ovarian neoplasm,malignant ovarian tumor,malignant ovary neoplasm,malignant tumor of ovary,malignant tumor of the ovary,malignant tumour of ovary,ovarian cancer,ovarian cancer, epithelial,ovarian malignant tumor,ovarian neoplasm,ovary cancer,ovary neoplasm,primary ovarian cancer,tumor of the ovary,Ovarian cancer
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- normal tissue
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- ovarian cancer
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- women diagnosed with high grade ovarian cancer
- Group 0 sample size Number of subjects in the control (unexposed) group
- 25
- 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)
- 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
- 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
- 3.5
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 2, Fig S3
Description: LEfSe was performed to identify the most differentially abundant taxons between ovarian cancer tissues and normal distal fallopian tube tissues.
(A,C) Histogram of the LDA scores for differentially abundant phyla and genera, respectively. Only taxa meeting an LDA significant threshold of 3.5 are shown. *P < 0.05; **P < 0.01; ***P < 0.001.
Abundance in Group 1: increased abundance in ovarian cancer
Revision editor(s): WikiWorks, Peace Sandy
Signature 2
Source: Figure 2, Fig S3
Description: LEfSe was performed to identify the most differentially abundant taxons between ovarian cancer tissues and normal distal fallopian tube tissues.
(A,C) Histogram of the LDA scores for differentially abundant phyla and genera, respectively. Only taxa meeting an LDA significant threshold of 3.5 are shown. *P < 0.05; **P < 0.01; ***P < 0.001.
Abundance in Group 1: decreased abundance in ovarian cancer
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Actinomycetota | ||
| Acidobacteriota | ||
| Fastidiosipila | ||
| Lactococcus | ||
| Lactococcus piscium |
Revision editor(s): WikiWorks, Peace Sandy
