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| Status |
Public on Jun 01, 2015 |
| Title |
BEC_934 |
| Sample type |
genomic |
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| Source name |
Human exfoliated bladder uroepithelial cells
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| Organism |
Homo sapiens |
| Characteristics |
cell type: Human exfoliated bladder uroepithelial cells
exposure: tAs(III+V) (pg As/10,000 cells) =34.555, iAs(III+V) (pg As/10,000 cells) =27.233, MMAs(III+V) (pg As/10,000 cells) = 5.918, DMAs(III+V) (pg As/10,000 cells) = 1.404, Mother's Age (yr) =20, Mother's BMI (kg/m^2) = 26.2
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Exfoliated bladder uroepithelial cells (BECs) were isolated from freshly collected urine. DNA was extracted from the BECs of 46 subjects using the QIAamp DNA Blood Mini Kit (Qiagen, Valenica, CA) according to manufacturer’s instruction. CpG-methylated DNA was isolated using the MethylMinerTM Methylated DNA Enrichment Kit (Invitrogen/Life Technologies, Grand Island, NY), amplified, and hybridized to Affymetrix Human Promoter 1.0R arrays (Affymetrix, Santa Clara, CA).
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| Label |
biotin
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| Label protocol |
Labeled DNA were prepared according to the standard Affymetrix protocol
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| Hybridization protocol |
Following amplification, DNA was hybridized on Affymetrix Human Promoter 1.0R Arrays
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| Scan protocol |
Microarrays were scanned using Affymetrix Microarray Scanner
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| Description |
normalized methylation abundance levels (log2 transformed)
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| Data processing |
Data were normalized by robust multi-chip averaging using Partek® Genomics SuiteTM software (version 6.6)
supplementary matrix file contains normalized signal intensity, log2 transformed
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| Submission date |
Jun 13, 2014 |
| Last update date |
Jun 01, 2015 |
| Contact name |
Rebecca Catherine Fry |
| E-mail(s) |
rfry@unc.edu
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| Organization name |
UNC-Chapel Hill
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| Department |
Environmental Sciences and Engineering
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| Street address |
1213 MHRC
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| City |
Chapel Hill |
| ZIP/Postal code |
27599 |
| Country |
USA |
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| Platform ID |
GPL5082 |
| Series (1) |
| GSE58499 |
Arsenic-Associated Differential DNA Methylation in Human Uroepithelial Cells |
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| Supplementary file |
Size |
Download |
File type/resource |
| GSM1412634_BEC_934.CEL.gz |
17.4 Mb |
(ftp)(http) |
CEL |
| Processed data are available on Series record |
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