Salivary microbiome profiles for different clinical phenotypes of pituitary adenomas by single-molecular long-read sequencing/Experiment 1
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Reviewed Marked as Reviewed by Svetlana up on 2024-7-26
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
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Pituitary Gland Adenoma adenoma of pituitary,adenoma of pituitary gland,adenoma of the pituitary,adenoma of the pituitary gland,adenoma, anterior lobe pituitary gland, benign,pituitary adenoma,pituitary gland adenoma,PTAD,Pituitary Gland Adenoma,pituitary Gland Adenoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Patients with pituitary adenomas (PA)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with pituitary adenomas (PA) which included four clinical phenotypes: adrenocorticotropic hormone-secreting PA (n = 6), growth hormone-secreting PA (n = 9), prolactin-secreting PA (n = 18), and nonfunctioning PA (n = 9)
- 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
- 42
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 months
Lab analysis
- Sequencing type
- 16S
- 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
- Sequencing platform: "PacBio RS" is not in the list (DNA-DNA Hybridization, Human Intestinal Tract Chip, Illumina, Ion Torrent, Non-quantitative PCR, PhyloChip, Roche454, RT-qPCR, Mass spectrometry, Nanopore, ...) of allowed values.PacBio RS
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-7-26
Source: Fig 2D
Description: Differential abundance of microbes in patients with pituitary adenomas (PA) versus healthy individual
Abundance in Group 1: increased abundance in Patients with pituitary adenomas (PA)
Revision editor(s): Scholastica, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-7-26
Source: Fig 2D
Description: Differential abundance of microbes in patients with pituitary adenomas (PA) versus healthy individual
Abundance in Group 1: decreased abundance in Patients with pituitary adenomas (PA)
Revision editor(s): Scholastica, WikiWorks
