Metagenomic Profiling of Ocular Surface Microbiome Changes in Meibomian Gland Dysfunction/Experiment 1
From BugSigDB
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
- Meibum , Skin of eyelid , Conjunctiva Tarsal gland secretion,Meibum,meibum,Blepharon zone of skin,Eyelid skin,Eyelid zone of skin,Zone of skin of blepharon,Zone of skin of eyelid,Skin of eyelid,skin of eyelid,Conjunctiva,conjunctiva,Conjunctivae,Conjunctivas,Tunica conjunctiva,Wall of conjunctival sac
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Meibomian cyst chalazia,Chalazion,chalazion,cyst, Meibomian,Meibomian cyst,meibomian gland lipogranuloma,meibomian cyst
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Control (HCs)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Meibomian gland dysfunction (MGD)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients diagnosed with MGD Meibomian gland dysfunction (MGD)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 15
- Group 1 sample size Number of subjects in the case (exposed) group
- 61
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Antibiotic usage within 6 months.
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Supplementary Figure S2D
Description: Pathogens with differential incidences in meibum between MGD patients and healthy controls (p<0.05)
Abundance in Group 1: increased abundance in Meibomian gland dysfunction (MGD)
Revision editor(s): Rahila
