第860回千葉医学会例会・第16回千葉大学放射線医学教室例会

Methylation pattern in tumours and normal tissues. The methylation signature of RASSF1Îą, TIMP3 and PCQAP in HNSCC and normal tissues from The Cancer Genome Atlas (TCGA) database. (DOCX 91 kb

Table_2_The Performance of an Oral Microbiome Biomarker Panel in Predicting Oral Cavity and Oropharyngeal Cancers.DOCX

<p>The oral microbiome can play a role in the instigation and progression of oral diseases that can manifest into other systemic conditions. These associations encourage the exploration of oral dysbiosis leading to the pathogenesis of cancers. In this study, oral rinse was used to characterize the oral microbiome fluctuation associated with oral cavity cancer (OCC) and oropharyngeal cancers (OPC). The study cohort consists of normal healthy controls (n = 10, between 20 and 30 years of age; n = 10, above 50 years of age), high-risk individuals (n = 11, above 50 years of age with bad oral hygiene and/or oral diseases) and OCC and OPC patients (n = 31, HPV-positive; n = 21, HPV-negative). Oral rinse samples were analyzed using 16S rRNA gene amplicon sequencing on the MiSeq platform. Kruskal–Wallis rank test was used to identify genera associated with OCC and OPC. A logistic regression analysis was carried out to determine the performance of these genera as a biomarker panel to predict OCC and OPC. In addition, a two-fold cross-validation with a bootstrap procedure was carried out in R to investigate how well the panel would perform in an emulated clinical scenario. Our data indicate that the oral microbiome is able to predict the presence of OCC and OPC with sensitivity and specificity of 100 and 90%, respectively. With further validation, the panel could potentially be implemented into clinical diagnostic and prognostic workflows for OCC and OPC.</p

Additional file 1: Fig. S1. of PD-L1 expressing circulating tumour cells in head and neck cancers

HNSCC cell lines (FaDu) immunofluorescent staining with DAPI (Blue), PD-L1 (Red). Scale bar represents 10 μm. Fig. S2 Rabbit IgG monoclonal Isotype control (AlexaFluor 647) (ab199093). Scale bar represents 10 μm. Fig. S3 DAPI and PD-L1 staining on HNSCC cell line (SCC15) spiked into Normal healthy blood and sorted on the spiral chip (CTC outlet). White arrows indicate leukocytes in the background of spiked tumour cells. Scale bar represents 10 μm. Fig. S4 PD-L1 staining of white blood cells in the waste channel of the spiral chip. Scale bar represents 10 μm. (DOCX 1176 kb

Table_3_The Performance of an Oral Microbiome Biomarker Panel in Predicting Oral Cavity and Oropharyngeal Cancers.XLSX

<p>The oral microbiome can play a role in the instigation and progression of oral diseases that can manifest into other systemic conditions. These associations encourage the exploration of oral dysbiosis leading to the pathogenesis of cancers. In this study, oral rinse was used to characterize the oral microbiome fluctuation associated with oral cavity cancer (OCC) and oropharyngeal cancers (OPC). The study cohort consists of normal healthy controls (n = 10, between 20 and 30 years of age; n = 10, above 50 years of age), high-risk individuals (n = 11, above 50 years of age with bad oral hygiene and/or oral diseases) and OCC and OPC patients (n = 31, HPV-positive; n = 21, HPV-negative). Oral rinse samples were analyzed using 16S rRNA gene amplicon sequencing on the MiSeq platform. Kruskal–Wallis rank test was used to identify genera associated with OCC and OPC. A logistic regression analysis was carried out to determine the performance of these genera as a biomarker panel to predict OCC and OPC. In addition, a two-fold cross-validation with a bootstrap procedure was carried out in R to investigate how well the panel would perform in an emulated clinical scenario. Our data indicate that the oral microbiome is able to predict the presence of OCC and OPC with sensitivity and specificity of 100 and 90%, respectively. With further validation, the panel could potentially be implemented into clinical diagnostic and prognostic workflows for OCC and OPC.</p

Table_1_The Performance of an Oral Microbiome Biomarker Panel in Predicting Oral Cavity and Oropharyngeal Cancers.DOCX

<p>The oral microbiome can play a role in the instigation and progression of oral diseases that can manifest into other systemic conditions. These associations encourage the exploration of oral dysbiosis leading to the pathogenesis of cancers. In this study, oral rinse was used to characterize the oral microbiome fluctuation associated with oral cavity cancer (OCC) and oropharyngeal cancers (OPC). The study cohort consists of normal healthy controls (n = 10, between 20 and 30 years of age; n = 10, above 50 years of age), high-risk individuals (n = 11, above 50 years of age with bad oral hygiene and/or oral diseases) and OCC and OPC patients (n = 31, HPV-positive; n = 21, HPV-negative). Oral rinse samples were analyzed using 16S rRNA gene amplicon sequencing on the MiSeq platform. Kruskal–Wallis rank test was used to identify genera associated with OCC and OPC. A logistic regression analysis was carried out to determine the performance of these genera as a biomarker panel to predict OCC and OPC. In addition, a two-fold cross-validation with a bootstrap procedure was carried out in R to investigate how well the panel would perform in an emulated clinical scenario. Our data indicate that the oral microbiome is able to predict the presence of OCC and OPC with sensitivity and specificity of 100 and 90%, respectively. With further validation, the panel could potentially be implemented into clinical diagnostic and prognostic workflows for OCC and OPC.</p

Additional file 1: Figure S1. of Salivary DNA methylation panel to diagnose HPV-positive and HPV-negative head and neck cancers

MED15/PCQAP MSP amplicon sequence confirmation. The alignment of MED15/PCQAP MSP amplicon sequence in the NCBI Basic Local Alignment Search Tool (BLAST) database. (DOCX 218 kb

Additional file 3: Figure S2. of Salivary DNA methylation panel to diagnose HPV-positive and HPV-negative head and neck cancers

The amplification regions of individual genes with respective promoter start sites and CpG islands. A detailed map illustrating the location of the amplification region, promoter start site and CpG islands for RASSF1Îą, p16 INK4a , TIMP3 and PCQAP. (DOCX 260 kb

Additional file 1: Supplementary Table S1. of A pilot study to compare the detection of HPV-16 biomarkers in salivary oral rinses with tumour p16INK4a expression in head and neck squamous cell carcinoma patients

Demographic characteristics, lifestyle and tumor characteristics of study participants (DOCX 18 kb

Additional file 3: Table S3. of A pilot study to compare the detection of HPV-16 biomarkers in salivary oral rinses with tumour p16INK4a expression in head and neck squamous cell carcinoma patients

Summary of results for the detection of HPV-16-specific DNA and RNA in oral rinse of patients with p16INK4a-negative HNSCC (XLSX 38 kb

Additional file 2: Table S2. of A pilot study to compare the detection of HPV-16 biomarkers in salivary oral rinses with tumour p16INK4a expression in head and neck squamous cell carcinoma patients

Summary of results for the detection of HPV-16-specific DNA and RNA in oral rinse of patients with p16INK4a-positive HNSCC (XLSX 41 kb