Cervicovaginal Fungi and Bacteria Associated With Cervical Intraepithelial Neoplasia and High-Risk Human Papillomavirus Infections in a Hispanic Population/Experiment 2

From BugSigDB


Reviewed Marked as Reviewed by Fatima on 2021/04/20

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing

Subjects

Location of subjects
United States of America
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
Vagina Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Cervical glandular intraepithelial neoplasia , Human papilloma virus infection Cervical glandular intraepithelial neoplasia,cervical glandular intraepithelial neoplasia,HPV,Human Papilloma Virus Infection,Human papilloma Virus infection,human papilloma virus infection,Human papillomavirus caused disease or disorder,Human papillomavirus disease or disorder,Human Papillomavirus Infection,Human Papillomavirus infection,Human papillomavirus infectious disease,Human papilloma virus infection
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Low risk-HPV
Group 1 name Corresponds to the case (exposed) group for case-control studies
High risk-HPV
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
High risk-HPV
Group 0 sample size Number of subjects in the control (unexposed) group
3
Group 1 sample size Number of subjects in the case (exposed) group
27
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
2 months

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
-V2
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
Mann-Whitney (Wilcoxon)
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
increased
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Fatima on 2021/04/20

Curated date: 2021/01/10

Curator: Cynthia Anderson

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Figure 8

Description: Fungal biomarker signatures in high risk-HPV group compared to low risk-HPV group (in the 58 introitus samples)

Abundance in Group 1: increased abundance in High risk-HPV

NCBI Quality ControlLinks
Malassezia

Revision editor(s): WikiWorks, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by Fatima on 2021/04/20

Curated date: 2021/01/10

Curator: Cynthia Anderson

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Figure 8

Description: Fungal biomarker signatures in high risk-HPV group compared to low risk-HPV group (in the 58 introitus samples)

Abundance in Group 1: decreased abundance in High risk-HPV

NCBI Quality ControlLinks
Sporidiobolaceae

Revision editor(s): WikiWorks, ChiomaBlessing