Microbial changes in relation to oral mucositis in autologous hematopoietic stem cell transplantation recipients/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Subjects
- Location of subjects
- Netherlands
- 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
- Mouth Adult mouth,Cavital oralis,Cavitas oris,Cavum oris,Mouth cavity,Oral region,Oral vestibule,Regio oralis,Rima oris,Stoma,Stomatodaeum,Trophic apparatus,Vestibule of mouth,Vestibulum oris,Mouth,mouth
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Oral mucositis inflammation of the mouth,oral cavity mucosal damage,oral mucosa irritation,oral mucosal damage,oral mucosal injury,oral mucosal lesions,stomatitis,Oral mucositis,oral mucositis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- one and two weeks after stem cell transplant
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- pre- and three month after auto stem cell transplant
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patient developed uclerative oral mucositis
- Group 0 sample size Number of subjects in the control (unexposed) group
- 31
- 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
- RT-qPCR
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- PERMANOVA
- 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
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: text
Description: Based on principle component analysis asses taxa were responsible for the observed microbial shifts over time in non-uclerative oral mucositis group
Abundance in Group 1: increased abundance in pre- and three month after auto stem cell transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Veillonella atypica | ||
| Veillonella dispar | ||
| Actinomyces sp. | ||
| Actinomyces graevenitzii | ||
| Prevotella | ||
| Leptotrichia | ||
| Megasphaera micronuciformis | ||
| Veillonella sp. |
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: text
Description: Based on principle component analysis asses taxa were responsible for the observed microbial shifts over time in non-uclerative oral mucositis group
Abundance in Group 1: decreased abundance in pre- and three month after auto stem cell transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillus | ||
| Limosilactobacillus fermentum | ||
| Scardovia wiggsiae |
