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Sample GSM847574 Query DataSets for GSM847574
Status Public on Jan 18, 2012
Title PREC_3
Sample type genomic
Source name PrEC cells
Organism Homo sapiens
Characteristics tissue: prostate
cell line: PrEC
Treatment protocol Native DNA was used
Growth protocol 37 deg C with 5% CO2
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using the QIAamp Mini Kit (Qiagen) following manufacturers instructions.
Label Cy5 and Cy3
Label protocol According to manufacturer's protocol.
Hybridization protocol According to manufacturer's protocol.
Scan protocol According to manufacturer's protocol.
Description Sample name: 6264509024_R06C02
Data processing R/Bioconductor 'minfi' package, with default parameters {RG.raw <- read.450k.exp(base = slide.folder, targets = files.table); methyl.norm <- preprocessIllumina(RG.raw, bg.correct = TRUE, normalize = controls); beta.table <- getBeta(methyl.norm)}, to generate beta values
Submission date Dec 12, 2011
Last update date Jan 18, 2012
Contact name Mark Robinson
Organization name University of Zuerich
Department Institute of Molecular Life Sciences
Street address Winterthurerstrasse 190
City Zuerich
ZIP/Postal code 8057
Country Switzerland
Platform ID GPL13534
Series (2)
GSE34340 Bisulphite sequencing of native LNCaP and PrEC DNA [methylation array]
GSE34403 Bisulphite-sequencing of chromatin immunoprecipitated DNA directly informs methylation status of histone-modified DNA

Data table header descriptions
VALUE Beta values

Data table
cg00050873 0.840626805
cg00212031 0.012179852
cg00213748 0.894675926
cg00214611 0.015337847
cg00455876 0.868486765
cg01707559 0.031799476
cg02004872 0.015748821
cg02011394 0.966197183
cg02050847 0.985163671
cg02233190 0.011693057
cg02494853 0.008066987
cg02839557 0.008102282
cg02842889 0
cg03052502 0.985996067
cg03155755 0.971148364
cg03244189 0.029891304
cg03443143 0.900638104
cg03683899 0.013206349
cg03695421 0.731313131
cg03706273 0.035860542

Total number of rows: 485577

Table truncated, full table size 10781 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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