Changes in the salivary microbiota of oral leukoplakia and oral cancer
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Xiaosheng Hu, Feng Chen, Qian Zhang, Hong
Journal
Oral oncology
Year
2016
Pages:
First page:
Keywords:
Oral cancer is one of the most prevalent cancers in the world, with oral squamous cell carcinoma (OSCC) accounting for 90% of all oral cancers [1]. The oral cavity is the second microbiome habitat in the human body and harbors numerous microbiota; an estimated 500–700 bacteria belonging to different species are present here [2]. To better understand the relationship between the salivary microbiota and oral leukoplakia (OLK) and OSCC, we evaluated changes in the salivary microbiota of patients with OSCC and OLK relative to the oral bacterial profiles in healthy controls (HCs) in present study.
Experiment 1
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
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
- Oral leukoplakia leukokeratosis,Oral idiopathic keratosis,Oral idiopathic leukoplakia,Oral idiopathic white patch,Oral leucoplakia,Oral leukokeratosis,Oral leukoplasia,Oral white patch,Oral white plaque,Oral leukoplakia,oral leukoplakia
- 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
- Oral leukoplakia
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Oral leukoplakia patients
- Group 0 sample size Number of subjects in the control (unexposed) group
- 19
- Group 1 sample size Number of subjects in the case (exposed) group
- 10
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
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Kruskall-Wallis
- 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
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in oral leukoplakia vs. healthy control: a case-control study
Abundance in Group 1: increased abundance in Oral leukoplakia
| NCBI | Quality Control | Links |
|---|---|---|
| Haemophilus | ||
| Bacillus |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in oral leukoplakia vs. healthy control: a case-control study
Abundance in Group 1: decreased abundance in Oral leukoplakia
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus | ||
| Abiotrophia |
Revision editor(s): WikiWorks
Experiment 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Differences from previous experiment shown
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Oral squamous cell carcinoma mouth scc,mouth squamous cell carcinoma,OCSC,oral cavity scc,oral cavity squamous cell cancer,oral cavity squamous cell carcinoma,oral squamous cell carcinoma,scc of mouth,scc of oral cavity,scc of the mouth,scc of the oral cavity,squamous cell carcinoma of mouth,squamous cell carcinoma of oral cavity,squamous cell carcinoma of the mouth,squamous cell carcinoma of the oral cavity,Oral squamous cell carcinoma
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Oral Squamous Cell Cancer patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Oral Squamous Cell Cancer patients
- Group 1 sample size Number of subjects in the case (exposed) group
- 16
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in OSCC vs. healthy control: a case-control study
Abundance in Group 1: increased abundance in Oral Squamous Cell Cancer patients
| NCBI | Quality Control | Links |
|---|---|---|
| Haemophilus | ||
| Bacillus |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in OSCC vs. healthy control: a case-control study
Abundance in Group 1: decreased abundance in Oral Squamous Cell Cancer patients
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus | ||
| Abiotrophia |
Revision editor(s): WikiWorks
Experiment 3
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Differences from previous experiment shown
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Oral leukoplakia leukokeratosis,Oral idiopathic keratosis,Oral idiopathic leukoplakia,Oral idiopathic white patch,Oral leucoplakia,Oral leukokeratosis,Oral leukoplasia,Oral white patch,Oral white plaque,Oral leukoplakia,oral leukoplakia
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Oral Squamous Cell Cancer patients
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Oral leukoplakia
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Oral leukoplakia patients
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
- Group 1 sample size Number of subjects in the case (exposed) group
- 10
Lab analysis
Statistical Analysis
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
- increased
Signature 1
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in oral leukoplakia vs. OSCC: a case-control study
Abundance in Group 1: increased abundance in Oral leukoplakia
| NCBI | Quality Control | Links |
|---|---|---|
| Haemophilus | ||
| Streptococcus |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Fig 1 & 2
Description: Changes in oral microbiota in oral leukoplakia vs. OSCC: a case-control study
Abundance in Group 1: decreased abundance in Oral leukoplakia
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillus |
Revision editor(s): WikiWorks
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