Differential DNA Methylation in Prostate Tumors from Puerto Rican Men

Ruiz-Deya, Gilberto; Matta, Jaime; Encarnación-Medina, Jarline; Ortiz-Sanchéz, Carmen; Dutil, Julie; Putney, Ryan M.; Berglund, Anders; Dhillon, Jasreman; Kim, Young‐Chul; Park, Jong Y.

doi:10.3390/ijms22020733

Cited by 6 publications

(6 citation statements)

References 63 publications

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“…Puerto Rican Hispanic/Latino men are at an increased risk of prostate cancer-specific mortality compared with NHW men. However, the relationship between this observation and epigenetics and how this relationship explains PCa racial and ethnic health disparities are controversial [ 26 ]. This study represents an ongoing effort to investigate DNA methylation in PR H/L men with PCa.…”

Section: Discussionmentioning

confidence: 99%

“…The first strength is that it is the largest study of epigenome-wide DNA methylation profiles of PR PCa patients. We previously reported results of epigenome-wide methylation analysis based on 24 PR PCa cases [ 26 ]. The second strength is that the identification of DNA methylation profiles associated with risk and aggressiveness of PCa in PR H/L men will provide a potential mechanism for studying PCa disparities in the PR population and to generate hypotheses for future studies.…”

Section: Discussionmentioning

confidence: 99%

“…Currently, the dysregulation of DNA methylation in PR PCa patients is well known. We recently reported differentially methylated genes in PCa tumor tissues and methylated genes associated with aggressiveness in a small number of PR men with PCa [ 26 ]. Our findings on epigenetic differences between prostate tumor and adjacent non-involved (normal) tissues will be used to detect PCa early and may clarify how PCa starts from the normal tissues.…”

Section: Introductionmentioning

confidence: 99%

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Dysregulation of DNA Methylation and Epigenetic Clocks in Prostate Cancer among Puerto Rican Men

et al. 2021

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In 2021, approximately 248,530 new prostate cancer (PCa) cases are estimated in the United States. Hispanic/Latinos (H/L) are the second largest racial/ethnic group in the US. The objective of this study was to assess DNA methylation patterns between aggressive and indolent PCa along with ancestry proportions in 49 H/L men from Puerto Rico (PR). Prostate tumors were classified as aggressive (n = 17) and indolent (n = 32) based on the Gleason score. Genomic DNA samples were extracted by macro-dissection. DNA methylation patterns were assessed using the Illumina EPIC DNA methylation platform. We used ADMIXTURE to estimate global ancestry proportions. We identified 892 differentially methylated genes in prostate tumor tissues as compared with normal tissues. Based on an epigenetic clock model, we observed that the total number of stem cell divisions (TNSC) and stem cell division rate (SCDR) were significantly higher in tumor than adjacent normal tissues. Regarding PCa aggressiveness, 141 differentially methylated genes were identified. Ancestry proportions of PR men were estimated as African, European, and Indigenous American; these were 24.1%, 64.2%, and 11.7%, respectively. The identification of DNA methylation profiles associated with risk and aggressiveness of PCa in PR H/L men will shed light on potential mechanisms contributing to PCa disparities in PR population.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Dysregulation of DNA Methylation and Epigenetic Clocks in Prostate Cancer among Puerto Rican Men

et al. 2021

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“…SLC17A2 is a protein-coding gene that is perceived only in the membrane and cytoplasm of hepatocyte, as shown in the tissue distribution diagram. One study indicated signi cant differentially methylated CpG sites between aggressive and indolent prostate cancers, and SLC17A2 was hypomethylated [11], which illustrated that the methylation of SLC17A2 enhanced tumor invasiveness. In addition, SLC17A2 is involved in various metabolic pathways as a critical transcription factor.…”

Section: Introductionmentioning

confidence: 99%

SLC17A2 Expression Correlates with Prognosis and Immune Infiltrates in Hepatocellular Carcinoma

Wang

Jiang

Chen

2022

CCHTS

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Background: Hepatocellular carcinoma (HCC) is one of the most common malignant tumors with a dismal prognosis, according to updated statistics. The solute carrier family 17 member 2 (SLC17A2) has not been studied in liver cancer. Therefore, we evaluated the role of SLC17A2 in HCC by bioinformatics analysis. Objective: The objective of the study was to explore the value of SLC17A2 in the prognosis and diagnosis of hepatocellular carcinoma. Method: The expression level of SLC17A2 in HCC and the clinicopathological data were analyzed based on The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases and validated by immunohistochemical staining. In addition, the Kaplan–Meier plotter database and receiver operating characteristic (ROC) curve analysis were used to explore the prognostic and diagnostic significance. Some online databases were used to analyze the relationship between immune cell infiltration and to analyze the relationship between immune cell infiltration and SLC17A2 in HCC. Results: Multivariate Cox regression analysis showed that SLC17A2 expression was low in HCC (P < 0.05) and closely related to the clinical stage of HCC. In addition, SLC17A2 had certain diagnostic value in HCC according to ROC curve analysis. Further biological analyses showed that SLC17A2 can regulate fatty acid metabolism, amino acid metabolism and cytochrome P450-related metabolism. Notably, we found that SLC17A2 expression was closely correlated with the infiltration of most immune cells in HCC. Conclusion: SLC17A2 expression is low in HCC and correlates with immune infiltration, so it may serve as an independent prognostic factor for HCC.

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“…It has been reported that the expression of collagen gene COL5A3 plays an important role in bone formation 11 . Some studies have shown that COL5A3 is involved in the occurrence and development of a variety of tumors, including breast cancer 12 , uveal melanoma 13 , prostate cancer 14 , renal cell carcinoma 15 and so on. Although it has been reported that COL5A3 is highly expressed in many tumors by high-throughput sequencing, the correlation between the expression of COL5A3 in pancreatic cancer and its prognostic value has not been reported.…”

Section: Introductionmentioning

confidence: 99%

COL5A3 is a Prognostic Biomarker and Correlated with Immune Infiltrates in Pancreatic Cancer

Zeng

Wang

et al. 2021

Preprint

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Pancreatic cancer is a malignant tumor of digestive system with high fatality rate, and its prognosis is very poor. Type Ⅴ collagen α3 (COL5A3) is highly expressed in a variety of tumor tissues, but its prognostic value and immune infiltration in pancreatic cancer are still unclear. Therefore, we evaluated the prognostic role of COL5A3 in pancreatic cancer and its correlation with immune infiltration. The transcriptional expression profiles of COL5A3 in pancreatic cancer and normal tissues were downloaded from the Cancer Genome Atlas (TCGA). In the GEO (Gene expression omnibus) dataset (GSE16515), we compared the expression of COL5A3 in normal and tumor tissues. The expression of COL5A3 protein was evaluated by the human protein atlas (THPA). The effect of COL5A3 on survival was evaluated by Kaplan-Meier method. Receiver operating characteristic (ROC) curve was used to distinguish pancreatic cancer from paracancerous normal tissues. Protein-protein interaction (PPI) network was constructed by the STRING. Use the "ClusterProfiler" package for functional enrichment analysis. Tumor immune estimation resource (TIMER) and tumor-immune system interaction database (TISIDB) were used to determine the relationship between COL5A3 mRNA expression and immune infiltration. Compared with normal tissues, COL5A3 is highly expressed in pancreatic cancer tissues. The high expression of COL5A3 is related to the poor clinicopathological features and poor prognosis of pancreatic cancer. Kaplan-Meier survival analysis showed that the prognosis of pancreatic cancer patients with high expression of COL5A3 was worse than that of patients with low expression of COL5A3. ROC curve shows that COL5A3 has high sensitivity and specificity in the diagnosis of pancreatic cancer. Correlation analysis showed that the expression of COL5A3 mRNA was related to immune cell infiltration. This study reveals for the first time that COL5A3 may be a new prognostic biomarker related to immune infiltration and provide a new target for the diagnosis and treatment of pancreatic cancer.

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Differential DNA Methylation in Prostate Tumors from Puerto Rican Men

Cited by 6 publications

References 63 publications

Dysregulation of DNA Methylation and Epigenetic Clocks in Prostate Cancer among Puerto Rican Men

Dysregulation of DNA Methylation and Epigenetic Clocks in Prostate Cancer among Puerto Rican Men

SLC17A2 Expression Correlates with Prognosis and Immune Infiltrates in Hepatocellular Carcinoma

COL5A3 is a Prognostic Biomarker and Correlated with Immune Infiltrates in Pancreatic Cancer

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