The direct and indirect association of cervical microbiota with the risk of cervical intraepithelial neoplasia/Experiment 2

From BugSigDB


Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing

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
Cervical glandular intraepithelial neoplasia Cervical glandular intraepithelial neoplasia,cervical glandular intraepithelial neoplasia
Group 0 name Corresponds to the control (unexposed) group for case-control studies
HPV -ve among pateints with Cervical Intraepithelial Neoplasia different severity status
Group 1 name Corresponds to the case (exposed) group for case-control studies
HPV +ve
Group 0 sample size Number of subjects in the control (unexposed) group
130
Group 1 sample size Number of subjects in the case (exposed) group
36

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)?
Yes
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2


Signature 1

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): WikiWorks

Source: Figure 4

Description: LEfSe showing the differences in the 18 most abundant species according to HPV infection

Abundance in Group 1: increased abundance in HPV +ve

NCBI Quality ControlLinks
Streptococcus agalactiae
Bacteroides fragilis
Stutzerimonas stutzeri
Peptostreptococcus anaerobius

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): WikiWorks

Source: Figure 4

Description: LEfSe showing the differences in the 18 most abundant species according to HPV infection

Abundance in Group 1: decreased abundance in HPV +ve

NCBI Quality ControlLinks
Lactobacillus delbrueckii

Revision editor(s): WikiWorks