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| Status |
Public on Jun 26, 2012 |
| Title |
Patterns of aberrant DNA methylation after toxicant-induced malignant transformation (MeDIP-chip dataset 2) |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
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| Summary |
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.
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| Overall design |
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.
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| Contributor(s) |
Severson PL, Vrba L, Tokar EJ, Waalkes MP, Futscher BW |
| Citation(s) |
23974009 |
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| Submission date |
Jun 25, 2012 |
| Last update date |
Apr 24, 2014 |
| Contact name |
Paul Severson |
| E-mail(s) |
severson@pharmacy.arizona.edu
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| Organization name |
University of Arizona
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| Department |
Pharmacology and Toxicology
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| Lab |
Dr Futscher, Cancer Epigenomics
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| Street address |
1515 N Campbell Ave
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| City |
Tucson |
| State/province |
AZ |
| ZIP/Postal code |
85724 |
| Country |
USA |
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| Platforms (1) |
| GPL8170 |
Agilent-014707 Human Promoter ChIP-on-Chip Set 244K, Microarray 2 of 2 G4489A (Probe name version) |
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| Samples (28)
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| GSM952333 |
Normal human urothelial cells, HUC_p3, slide 2 |
| GSM952334 |
Normal human urothelial cells, HUC_p5, slide 2 |
| GSM952335 |
Immortalized human urothelial cells, UROtsa_p27, slide 2 |
| GSM952336 |
Immortalized human urothelial cells, UROtsa_p41, slide 2 |
| GSM952337 |
Immortalized human urothelial cells, UROtsa_p95, slide 2 |
| GSM952338 |
MMA-transformed human urothelial cells, URO-MSC12+24(-), slide 2 |
| GSM952339 |
MMA-transformed human urothelial cells, URO-MSC52, slide 2 |
| GSM952340 |
Arsenite-transformed human urothelial cells, URO-ASSC, slide 2 |
| GSM952341 |
Cadmium-transformed human urothelial cells, URO-CDSC, slide 2 |
| GSM952342 |
Blackfoot urothelial carcinoma cell line 905, slide 2 |
| GSM952343 |
Blackfoot urothelial carcinoma cell line 909, slide 2 |
| GSM952344 |
Bladder tumor specimen CD565196, slide 2 |
| GSM952345 |
Bladder tumor specimen CD563428, slide 2 |
| GSM952346 |
Bladder tumor specimen CD564450, slide 2 |
| GSM952347 |
Bladder tumor specimen CD565095, slide 2 |
| GSM952348 |
Bladder tumor specimen CD564293, slide 2 |
| GSM952349 |
Bladder tumor specimen CD564409, slide 2 |
| GSM952350 |
Normal human prostate epithelial cells, PrEC_p3, slide 2 |
| GSM952351 |
Normal human prostate epithelial cells, PrEC_p4, slide 2 |
| GSM952352 |
Immortalized human prostate epithelial cells, RWPE-1_p17, slide 2 |
| GSM952353 |
Immortalized human prostate epithelial cells, RWPE-1_p29, slide 2 |
| GSM952354 |
Arsenite-transformed human prostate epithelial cells, CAsE-PE_30wk, slide 2 |
| GSM952355 |
Arsenite-transformed human prostate epithelial cells, CAsE-PE_33wk, slide 2 |
| GSM952356 |
Cadmium-transformed human prostate epithelial cells, CTPE, slide 2 |
| GSM952357 |
MNU-transformed human prostate epithelial cells, WPE1-NB26, slide 2 |
| GSM952358 |
Prostate carcinoma cell line, LNCaP, slide 2 |
| GSM952359 |
Prostate adenocarcinoma cell line, PC3, slide 2 |
| GSM952360 |
Prostate carcinoma cell line, DU145, slide 2 |
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| This SubSeries is part of SuperSeries: |
| GSE38930 |
Patterns of aberrant DNA methylation after toxicant-induced malignant transformation |
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| Relations |
| BioProject |
PRJNA169417 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE38928_RAW.tar |
930.5 Mb |
(http)(custom) |
TAR (of GPR) |
| Processed data included within Sample table |
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