Journal of Prevention and Treatment for Stomatological Diseases ›› 2021, Vol. 29 ›› Issue (10): 677-683.DOI: 10.12016/j.issn.2096-1456.2021.10.005
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WANG Guangchao(),LIU Lijun,JIANG Weiwen(
)
Received:
2021-01-30
Revised:
2021-05-01
Online:
2021-10-20
Published:
2021-06-23
Contact:
Weiwen JIANG
Supported by:
通讯作者:
蒋伟文
作者简介:
王广超,硕士研究生,Email: 基金资助:
CLC Number:
WANG Guangchao,LIU Lijun,JIANG Weiwen. Significance of phosphoinositol metabolism by DNA methylation may contribute in oral leukoplakia carcinogenesis[J]. Journal of Prevention and Treatment for Stomatological Diseases, 2021, 29(10): 677-683.
王广超,刘丽骏,蒋伟文. DNA甲基化激活磷酸肌醇代谢在口腔白斑癌变中的意义[J]. 口腔疾病防治, 2021, 29(10): 677-683.
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Figure 1 Heatmap of partial detection of Illumina 450K methylation chip Each column represents a sample, and each row represents a DNA methylation site. Only the clustering results of the first twenty loci were shown
Data set profile | Region | Type | Sample type and sample size |
---|---|---|---|
GSE33205 | BALTIMORE(USA) | HUEX-1_0-ST | HNSCC(n=50) vs. Normal(n=25) |
GSE85195 | NAVI MUMBAI(INDIA) | AGILENT-014850 | OLK(n=15) vs. OSCC(n=34) vs. Normal(n=1) |
Table 1 External expression profile data set selected for this experiment
Data set profile | Region | Type | Sample type and sample size |
---|---|---|---|
GSE33205 | BALTIMORE(USA) | HUEX-1_0-ST | HNSCC(n=50) vs. Normal(n=25) |
GSE85195 | NAVI MUMBAI(INDIA) | AGILENT-014850 | OLK(n=15) vs. OSCC(n=34) vs. Normal(n=1) |
DNA methylation(5%) | OSCC | OLK | Normal |
---|---|---|---|
OSCC | 0.62 | 0.61 | 0.65 |
OLK | 0.61 | 0.62 | 0.66 |
Normal | 0.65 | 0.66 | 0.67 |
Table 2 5% overlap of DNA methylation spectrum at the lowest β value
DNA methylation(5%) | OSCC | OLK | Normal |
---|---|---|---|
OSCC | 0.62 | 0.61 | 0.65 |
OLK | 0.61 | 0.62 | 0.66 |
Normal | 0.65 | 0.66 | 0.67 |
Expression(5%) | OSCC | OLK | Normal |
---|---|---|---|
OSCC | 0.80 | 0.75 | 0.80 |
OLK | 0.75 | 0.83 | 0.82 |
Normal | 0.80 | 0.82 | 0.80 |
Table 3 The 5% overlap rate of the expression profile at the maximum expression level
Expression(5%) | OSCC | OLK | Normal |
---|---|---|---|
OSCC | 0.80 | 0.75 | 0.80 |
OLK | 0.75 | 0.83 | 0.82 |
Normal | 0.80 | 0.82 | 0.80 |
Figure 2 The genes associated with OLK differential DNA methylation sites are mainly involved in cell movement and differentiation This figure shows the major interaction networks of differential DNA methylation sites in OLK tissues. Among them, the changes of DNA methylation status and expression amount of COL18A1, EBF2, IGF1R and KLF4 were supported by data. The activation/suppression of other genes were predicted by IPA internal algorithm. The COL18A1 promoter region is hypopethylated, and the gene host region is hypermethylated, with reduced expression. The EBF2 promoter region is hypomethylated and its expression is elevated. The main body region of IGF1R gene was hypomethylated and its expression was increased. Both KLF4 host region and promoter region were hypopethylated and their expression was increased. COL18A1: collagen type XVIII alpha 1 chain; EBF2: EBF transcription factor 2; IGF1R: insulin-like growth factor 1 receptor; KLF4: Kruppel like factor 4; OLK: oral leukoplakia
Canonical pathways | OSCC vs. Normal | OLK vs. Normal |
---|---|---|
Superpathway of inositol phosphate compounds | 2.837 | 2.324 |
3-phosphoinositide Biosynthesis | 2.828 | 2.309 |
D-myo-inositol (1, 4, 5, 6)-tetrakisphosphate biosynthesis | 2.673 | 2.111 |
D-myo-inositol (3, 4, 5, 6)-tetrakisphosphate biosynthesis | 2.673 | 2.111 |
D-myo-inositol-5-phosphate metabolism | 2.324 | 2.309 |
Phospholipase C signaling | -0.943 | 3.128 |
Table 4 The first six pathways with significant enrichment of genes related to different methylation sites of OSCC and OLK
Canonical pathways | OSCC vs. Normal | OLK vs. Normal |
---|---|---|
Superpathway of inositol phosphate compounds | 2.837 | 2.324 |
3-phosphoinositide Biosynthesis | 2.828 | 2.309 |
D-myo-inositol (1, 4, 5, 6)-tetrakisphosphate biosynthesis | 2.673 | 2.111 |
D-myo-inositol (3, 4, 5, 6)-tetrakisphosphate biosynthesis | 2.673 | 2.111 |
D-myo-inositol-5-phosphate metabolism | 2.324 | 2.309 |
Phospholipase C signaling | -0.943 | 3.128 |
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