Linking cervicovaginal immune signatures, HPV and microbiota composition in cervical carcinogenesis in non-Hispanic and Hispanic women/Experiment 8

Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09

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 cancer cancer of uterine cervix,cervical neoplasm,cervix cancer,cervix uteri cancer,malignant cervical neoplasm,malignant cervical tumor,malignant cervix neoplasm,malignant cervix tumor,malignant cervix uteri neoplasm,malignant cervix uteri tumor,malignant neoplasm of cervix,malignant neoplasm of cervix uteri,malignant neoplasm of the cervix,malignant neoplasm of the cervix uteri,malignant neoplasm of the uterine cervix,malignant neoplasm of uterine cervix,malignant tumor of cervix,malignant tumor of cervix uteri,malignant tumor of the cervix,malignant tumor of the cervix uteri,malignant tumor of the uterine cervix,malignant tumor of uterine cervix,malignant uterine cervix neoplasm,malignant uterine cervix tumor,tumor of the cervix uteri,uterine cervical neoplasm,uterine cervix cancer,Cervical cancer,cervical cancer

Group 0 name Corresponds to the control (unexposed) group for case-control studies: HPV-

Group 1 name Corresponds to the case (exposed) group for case-control studies: invasive cervical carcinoma

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: invasive cervical carcinoma confirmed by histology of colonoscopy-directed biopsy

Group 0 sample size Number of subjects in the control (unexposed) group: 20

Group 1 sample size Number of subjects in the case (exposed) group: 10

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: 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): 0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment: age, body mass index, ethnic group

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Reviewed Marked as Reviewed by Fatima on 2021/10/14

Curated date: 2021/01/10

Curator: Cynthia Anderson

Revision editor(s): WikiWorks, Lwaldron, Cynthia Anderson, ChiomaBlessing

Source: Figure 4

Description: Enrichment in bacterial taxa in the invasive cervical carcinoma group when compared to HPV-negative control after adjusting for age, BMI, and ethnicity

Abundance in Group 1: decreased abundance in invasive cervical carcinoma

NCBI	Quality Control	Links
Anaerococcus
Bifidobacterium
Gardnerella
Lactobacillus
Lactobacillus crispatus
Moryella
Peptoniphilus grossensis
Prevotella bivia

Revision editor(s): WikiWorks, Lwaldron, Cynthia Anderson, ChiomaBlessing