Microbiome Profile of Deep Endometriosis Patients: Comparison of Vaginal Fluid, Endometrium and Lesion/Experiment 2

From BugSigDB


Reviewed Marked as Reviewed by Peace Sandy on 2023-12-19

Curated date: 2021/07/01

Curator: Samara.Khan

Revision editor(s): Samara.Khan, WikiWorks, Peace Sandy

Subjects

Location of subjects
Brazil
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
Endometriosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Control group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Eutopic Endometrium Samples
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Eutopic Endometrium samples were collected and processed for the evaluation of their bacterial profile:
Group 0 sample size Number of subjects in the control (unexposed) group
11
Group 1 sample size Number of subjects in the case (exposed) group
18
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
within 30 days prior to sample collection

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).
raw counts
Statistical test
DESeq2
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0
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

Signature 1

Reviewed Marked as Reviewed by Peace Sandy on 2023-12-19

Curated date: 2021/07/01

Curator: Samara.Khan

Revision editor(s): Samara.Khan

Source: Figure 4B

Description: There was increased abundance of bifidobacterium when comparing the endometrial lining of endometriosis patients to healthy controls

Abundance in Group 1: increased abundance in Eutopic Endometrium Samples

NCBI Quality ControlLinks
Bifidobacterium

Revision editor(s): Samara.Khan

Signature 2

Reviewed Marked as Reviewed by Peace Sandy on 2023-12-19

Curated date: 2021/07/01

Curator: Samara.Khan

Revision editor(s): Samara.Khan

Source: Figure 4B

Description: There was decreased abundance of atopobium, mobiluncus, campylobacter, chromohalobacter, and alcanivorax when comparing the endometrial lining of endometriosis patients to healthy controls

Abundance in Group 1: decreased abundance in Eutopic Endometrium Samples

NCBI Quality ControlLinks
Alcanivorax
Atopobium
Campylobacter
Chromohalobacter
Mobiluncus

Revision editor(s): Samara.Khan