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Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 2)

ABSTRACT: Aberrant DNA methylation is frequently observed in cancer. The aim of this study was to determine how DNA methylation is changed after toxicant-induced malignant transformation. This study also puts the DNA methylation changes into context with respect to the aberrant DNA methylation events that occur in bladder and prostate carcinogenesis not associated with toxicant exposure.

ORGANISM(S): Homo sapiens

PROVIDER: GSE38928 | GEO | 2012/06/26

SECONDARY ACCESSION(S): PRJNA169417

REPOSITORIES: GEO

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Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 1)

2012-06-26 | GSE38926 | GEO

Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 1)

Project description:Aberrant DNA methylation is frequently observed in cancer. The aim of this study was to determine how DNA methylation is changed after toxicant-induced malignant transformation. This study also puts the DNA methylation changes into context with respect to the aberrant DNA methylation events that occur in bladder and prostate carcinogenesis not associated with toxicant exposure. Immortalized UROtsa (n=3) and RWPE-1 (n=2) are compared to normal HUC (n=2) and PrEC (n=2), respectively. Arsenite (n=1), monomethylarsonous acid (n=2) or cadmium (n=1) transformed UROtsa are compared to parental UROtsa (n=3). Arsenite (n=2), cadmium (n=1) or MNU (n=1) transformed RWPE-1 cells are compared to parental RWPE-1 cells (n=2). Clinical bladder tumor biopsies (n=6), urothelial carcinoma cell lines (n=2) and prostate cancer cell lines (n=3) are compared to thier normal tissue counterparts HUC (n=2) and PrEC (n=2). Immunoprecipitation using anti-methylcytosine (5MeC) antibody.

2012-06-25 | E-GEOD-38926 | biostudies-arrayexpress

Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 2)

2012-06-25 | E-GEOD-38928 | biostudies-arrayexpress

Patterns of aberrant DNA methylation after toxicant-induced malignant transformation

Project description:This SuperSeries is composed of the following subset Series: GSE38926: Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 1) GSE38928: Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 2) GSE38929: Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (miRNA dataset) Refer to individual Series

2012-06-25 | E-GEOD-38930 | biostudies-arrayexpress

Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (miRNA dataset)

2012-06-26 | GSE38929 | GEO

Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (miRNA dataset)

Project description:Aberrant DNA methylation is frequently observed in cancer. The aim of this study was to determine how DNA methylation is changed after arsenic-induced malignant transformation. Arsenite-transformed RWPE-1 cells (n=2) are compared to parental RWPE-1 cells (n=2). Normal PrEC (n=2) are included for comparison. Immunoprecipitation using anti-methylcytosine (5MeC) antibody.

2012-06-25 | E-GEOD-38929 | biostudies-arrayexpress

Project description:Patterns of aberrant DNA methylation after toxicant-induced malignant transformation

| PRJNA169405 | ENA

Agglomerates of aberrant DNA methylation are associated with toxicant-induced malignant transformation.

Project description:Epigenetic dysfunction is a known contributor in carcinogenesis, and is emerging as a mechanism involved in toxicant-induced malignant transformation for environmental carcinogens such as arsenicals or cadmium. In addition to aberrant DNA methylation of single genes, another manifestation of epigenetic dysfunction in cancer is agglomerative DNA methylation, which can participate in long-range epigenetic silencing that targets many neighboring genes and has been shown to occur in several types of clinical cancers. Using in vitro model systems of toxicant-induced malignant transformation, we found hundreds of aberrant DNA methylation events that emerge during malignant transformation, some of which occur in an agglomerative fashion. In an arsenite-transformed prostate epithelial cell line, the protocadherin (PCDH), HOXC and HOXD gene family clusters are targeted for agglomerative DNA methylation. The agglomerative DNA methylation changes induced by arsenicals appear to be common and clinically relevant events, since they occur in other human cancer cell lines and models of malignant transformation, as well as clinical cancer specimens. Aberrant DNA methylation in general occurred more often within histone H3 lysine-27 trimethylation stem cell domains. We found a striking association between enrichment of histone H3 lysine-9 trimethylation stem cell domains and toxicant-induced agglomerative DNA methylation, suggesting these epigenetic modifications may become aberrantly linked during malignant transformation. In summary, we found an association between toxicant-induced malignant transformation and agglomerative DNA methylation, which lends further support to the hypothesis that epigenetic dysfunction plays an important role in toxicant-induced malignant transformation.

| S-EPMC3499325 | biostudies-literature

Homo sapiens

Project description:Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (miRNA dataset)

| PRJNA169418 | ENA

Aberrant blood DNA methylation reveals reproductive hormone imbalances in firefighters

Project description:Constant exposure to toxic combustion byproducts distresses firefighters and puts them at risk of developing adverse health conditions. Epigenetic alternations have been identified as one of the major mechanisms linked to environment-induced diseases. We found DUSP22 which was epigenetically activated in heavy traffic exposure cohort, also showed similar alternations in firefighters, suggesting that some common components in the exposure such as PAH exist could be the major epigenetic modifier in both cohorts. We hypothesize that occupation-related exposure causes aberrant methylation changes in blood and eventually affects health outcome in firefighters. Therefore, we performed a genome wide DNA methylation profiling on firefighter blood samples using methylated CpG island recovery assay with next generation sequencing. We found firefighters, showed significant DNA hypomethylation in a set genes which are functionally related to cancer, organismal injury and abnormalities, reproductive system diseases, and developmental disorders. Methylation changes in the top four genes (TRDR6, KLHL17, PDIA2, and PTCHD3) had been confirmed through bisulfite sequencing. Interestingly, GO-KEEG pathway analyses suggest reproductive system and spermatogenesis related pathway as the top gene network. Blood AMH level of firefighters was 1.43-times higher than that of the non-firefighters Our data, for the first time, showed the constant exposure to firefighting environment induces changes in blood DNA methylation and reproductive hormones, which explain why firefighters suffer certain poor health outcomes.

2016-10-12 | GSE73931 | GEO

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