Microbial dysbiosis is associated with human breast cancer/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Rimsha, WikiWorks

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
Breast Mamma,Mammary part of chest,Mammary region,Breast,breast
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Breast carcinoma breast cancer,breast cancer, NOS,breast carcinoma,cancer of breast,cancer of the breast,cancer, breast,carcinoma of breast,carcinoma of the breast,mammary carcinoma,Breast carcinoma
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
tumor tissue
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
20

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

Statistical test
T-Test
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
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age

Alpha Diversity

Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks, Atrayees

Source: Table S2 and Figure 1d

Description: OTUs enriched in paired normal or tumor tissue

Abundance in Group 1: increased abundance in tumor tissue

NCBI Quality ControlLinks
Methylobacterium radiotolerans
Flavobacterium
Methylobacterium
Methylobacteriaceae

Revision editor(s): WikiWorks, Atrayees

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks, Atrayees

Source: Table S2 and Figure 1d

Description: OTUs enriched in paired normal or tumor tissue

Abundance in Group 1: decreased abundance in tumor tissue

NCBI Quality ControlLinks
Sphingobium yanoikuyae
Sphingomonas
Nitrosomonas
Novosphingobium aromaticivorans
Bradyrhizobium
Streptococcus pseudopneumoniae
Sphingomonadaceae

Revision editor(s): WikiWorks, Atrayees