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Clinical Trial Report

DNA hypermethylated status and gene expression of PAX1/SOX1 in patients with colorectal carcinoma

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Pages 4739-4751 | Published online: 26 Sep 2017

Figures & data

Figure 1 DNA methylation of PAX1 and SOX1 analyzed in CRC using TCGA dataset.

Notes: (A) Comparison of DNA methylation status of SOX1 and PAX1 in 166 CRC tissues and 37 normal tissues. P<0.05 was considered significant. (B) DNA methylation status of SOX1 and PAX1 in 37 CRC tissues and paired normal tissues. (C and D) Kaplan–Meier estimation of overall survival according to PAX1 and SOX1 methylation status in 166 patients. Median methylation status of each gene was defined as cutoff. *P<0.05 was calculated by independent sample t-test. **P<0.05 was calculated by Wilcoxon signed-rank test. AUC data shown as value (specificity sensitivity).
Abbreviations: CRC, colorectal cancer; PAX1, paired boxed gene 1; SOX1, sex-determining region Y-related high-mobility group box 1; TCGA, The Cancer Genome Atlas.
Figure 1 DNA methylation of PAX1 and SOX1 analyzed in CRC using TCGA dataset.

Figure 2 DNA methylation status of PAX1 and SOX1 genes in CRC tissues and paired normal tissues from 41 patients with CRC.

Notes: Comparison of DNA methylation status log (meth-index) of PAX1 (A) and SOX1 (B) genes in 41 CRC tissues and paired normal tissues. The AUC of the ROC curve was calculated to diagnose the CRC and normal tissues for PAX1 (C) and SOX1 (D). P-value was calculated by Wilcoxon signed-rank test.
Abbreviations: AUC, areas under the curve; CRC, colorectal cancer; PAX1, paired boxed gene 1; ROC, receiver-operating characteristic; SOX1, sex-determining region Y-related high-mobility group box 1.
Figure 2 DNA methylation status of PAX1 and SOX1 genes in CRC tissues and paired normal tissues from 41 patients with CRC.

Table 1 Association of the frequency of methylation occurrence of PAX1 and SOX1 in cancer tissues to the clinical characteristics of 41 patients with CRC

Table 2 Sensitivities, specificities, and AUC of PAX1 and SOX1 methylation in detecting CRC tumor (n=41)

Table 4 Correlation between methylation levels of PAX1 and SOX1 in the cancer tissues and clinical characteristics of 41 patients with CRC

Table 3 Sensitivities, specificities, and AUC of PAX1 and SOX1 methylation in detecting low (n=27) and high (n=14) TNM stages

Figure 3 Methylation distribution of CRC tissues at various TNM stages.

Notes: (A) Dot plots illustrate the log (meth-index) distributions of PAX1 gene at various TNM stages. (B) The AUC of ROC curve was calculated to diagnose the TNM stage I/II and stage III/IV for PAX1. (C) Dot plots illustrate the log (meth-index) distributions of SOX1 gene at various TNM stages. (D) The AUC of ROC curve was calculated to diagnose the TNM stage I/II and stage III/IV for SOX1 gene. P<0.05 was determined by Mann–Whitney U-test. Arrows show the best specificity and sensitivity.
Abbreviations: AUC, areas under the curve; CRC, colorectal cancer; PAX1, paired boxed gene 1; ROC, receiver-operating characteristic; SOX1, sex-determining region Y-related high-mobility group box 1.
Figure 3 Methylation distribution of CRC tissues at various TNM stages.

Figure 4 mRNA expression of SOX1/PAX1 genes in CRC tissues of 41 patients with CRC.

Notes: (A) Relative SOX1 and (B) PAX1 mRNA expression levels ± SEM in CRC tissues and paired normal tissues. Pearson’s correlation was used to measure the linear relationship between mRNA expression (x-axis) and methylation level log (meth-index) (y-axis) of (C) SOX1 and (D) PAX1 genes in 41 CRC tissues. P-values were performed by t-test.
Abbreviations: CRC, colorectal cancer; PAX1, paired boxed gene 1; SOX1, sex-determining region Y-related high-mobility group box 1.
Figure 4 mRNA expression of SOX1/PAX1 genes in CRC tissues of 41 patients with CRC.
Figure 4 mRNA expression of SOX1/PAX1 genes in CRC tissues of 41 patients with CRC.

Figure 5 Representative expression of PAX1 and SOX1 protein in colorectal tissues compared with paired normal tissues.

Notes: (A) IHC staining of SOX1 protein expression in normal tissue samples. (B) IHC staining of SOX1 protein expression in CRC tissue samples. (C) IHC staining of PAX1 protein expression in normal tissue samples. (D) IHC staining of PAX1 protein expression in CRC tissue samples (×200).
Abbreviations: CRC, colorectal cancer; IHC, immunohistochemical; PAX1, paired boxed gene 1; SOX1, sex-determining region Y-related high-mobility group box 1.
Figure 5 Representative expression of PAX1 and SOX1 protein in colorectal tissues compared with paired normal tissues.

Figure S1 Correlation between the methylation status of SOX1 and PAX1 in the same CRC samples.

Notes: Pearson’s correlation was used to measure the linear relationship between methylation log (meth-index) of PAX1 (x-axis) and SOX1 (y-axis) in 41 CRC tissues (A) and 166 CRCs downloaded from TCGA dataset (B). P-values were performed by independent sample t-test.

Abbreviations: CRC, colorectal cancer; PAX1, paired boxed gene 1; SOX1, sex-determining region Y-related high-mobility group box 1; TCGA, The Cancer Genome Atlas.

Figure S1 Correlation between the methylation status of SOX1 and PAX1 in the same CRC samples.Notes: Pearson’s correlation was used to measure the linear relationship between methylation log (meth-index) of PAX1 (x-axis) and SOX1 (y-axis) in 41 CRC tissues (A) and 166 CRCs downloaded from TCGA dataset (B). P-values were performed by independent sample t-test.Abbreviations: CRC, colorectal cancer; PAX1, paired boxed gene 1; SOX1, sex-determining region Y-related high-mobility group box 1; TCGA, The Cancer Genome Atlas.

Table S1 Association of the frequency of methylation occurrence of cg20907471 (PAX1) and average of cg22303211 and cg06675478 (SOX1) in cancer tissues to the clinical characteristics of 166 patients with CRC using TCGA datasets (n=166)