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Transcriptional profiling of radiation damage and preventive treatments in a 3-dimensional (3D) human cell culture model of oral mucositis.

Lambros MP, DeSalvo MK, Moreno J, Mulamalla HC, Kondapalli L - Genom Data (2015)

Bottom Line: Here we provide detailed methods and analysis of microarray data for non-irradiated and irradiated human oral mucosal tissue with and without pretreatment with NAC, QYD and NAC-QYD.The microarray data been deposited in Gene Expression Omnibus (GEO): GSE62397.These data can be used to further elucidate the mechanisms of irradiation damage in oral mucosa and its prevention.

View Article: PubMed Central - PubMed

Affiliation: College of Pharmacy, Western University of Health Sciences, Pomona, CA 91766, USA.

ABSTRACT
Cancer patients who receive radiation are often afflicted by oral mucositis, a debilitating disease, characterized by mouth sores and difficulty in swallowing. Oftentimes, cancer patients afflicted with mucositis must stop life-saving therapies. Thus it is very important to prevent mucositis before it develops. Using a validated organotypic model of human oral mucosa, a 3-dimensional cell culture model of human oral keratinocytes, it has been shown that a mixture (NAC-QYD) of N-acetyl cysteine (NAC) and a traditional Chinese medicine, Qingre Liyan decoction (QYD), prevented radiation damage (Lambros et al., 2014). Here we provide detailed methods and analysis of microarray data for non-irradiated and irradiated human oral mucosal tissue with and without pretreatment with NAC, QYD and NAC-QYD. The microarray data been deposited in Gene Expression Omnibus (GEO): GSE62397. These data can be used to further elucidate the mechanisms of irradiation damage in oral mucosa and its prevention.

No MeSH data available.


Related in: MedlinePlus

Representative scatter plot of raw (R) and normalized (N) data from three technical replicate hybridizations of a single sample. For all samples, the scatter plots revealed tight correlation between raw and normalized data replicates, which overall, points to high repeatability of technical replicate hybridizations.
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f0010: Representative scatter plot of raw (R) and normalized (N) data from three technical replicate hybridizations of a single sample. For all samples, the scatter plots revealed tight correlation between raw and normalized data replicates, which overall, points to high repeatability of technical replicate hybridizations.

Mentions: Next, we compared scatter plots of raw and normalized log2 data for each sample using the R function pairs. Only data with a P-value detected < 0.01 were included. A representative scatter plot is shown in Fig. 2. Scatter plots were viewed in conjunction with Pearson correlation tables. Correlation values were calculated from both raw and normalized log2 intensities for each technical repeat. Only probes with P-value detected < 0.01 were included in the calculation. A representative correlation table is shown in Table 1. All correlation values were > 0.961, and scatter plots confirmed high repeatability among technical replicates.


Transcriptional profiling of radiation damage and preventive treatments in a 3-dimensional (3D) human cell culture model of oral mucositis.

Lambros MP, DeSalvo MK, Moreno J, Mulamalla HC, Kondapalli L - Genom Data (2015)

Representative scatter plot of raw (R) and normalized (N) data from three technical replicate hybridizations of a single sample. For all samples, the scatter plots revealed tight correlation between raw and normalized data replicates, which overall, points to high repeatability of technical replicate hybridizations.
© Copyright Policy - CC BY-NC-ND
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4664678&req=5

f0010: Representative scatter plot of raw (R) and normalized (N) data from three technical replicate hybridizations of a single sample. For all samples, the scatter plots revealed tight correlation between raw and normalized data replicates, which overall, points to high repeatability of technical replicate hybridizations.
Mentions: Next, we compared scatter plots of raw and normalized log2 data for each sample using the R function pairs. Only data with a P-value detected < 0.01 were included. A representative scatter plot is shown in Fig. 2. Scatter plots were viewed in conjunction with Pearson correlation tables. Correlation values were calculated from both raw and normalized log2 intensities for each technical repeat. Only probes with P-value detected < 0.01 were included in the calculation. A representative correlation table is shown in Table 1. All correlation values were > 0.961, and scatter plots confirmed high repeatability among technical replicates.

Bottom Line: Here we provide detailed methods and analysis of microarray data for non-irradiated and irradiated human oral mucosal tissue with and without pretreatment with NAC, QYD and NAC-QYD.The microarray data been deposited in Gene Expression Omnibus (GEO): GSE62397.These data can be used to further elucidate the mechanisms of irradiation damage in oral mucosa and its prevention.

View Article: PubMed Central - PubMed

Affiliation: College of Pharmacy, Western University of Health Sciences, Pomona, CA 91766, USA.

ABSTRACT
Cancer patients who receive radiation are often afflicted by oral mucositis, a debilitating disease, characterized by mouth sores and difficulty in swallowing. Oftentimes, cancer patients afflicted with mucositis must stop life-saving therapies. Thus it is very important to prevent mucositis before it develops. Using a validated organotypic model of human oral mucosa, a 3-dimensional cell culture model of human oral keratinocytes, it has been shown that a mixture (NAC-QYD) of N-acetyl cysteine (NAC) and a traditional Chinese medicine, Qingre Liyan decoction (QYD), prevented radiation damage (Lambros et al., 2014). Here we provide detailed methods and analysis of microarray data for non-irradiated and irradiated human oral mucosal tissue with and without pretreatment with NAC, QYD and NAC-QYD. The microarray data been deposited in Gene Expression Omnibus (GEO): GSE62397. These data can be used to further elucidate the mechanisms of irradiation damage in oral mucosa and its prevention.

No MeSH data available.


Related in: MedlinePlus