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Sample GSM847570 Query DataSets for GSM847570
Status Public on Jan 18, 2012
Title LNCAP_2
Sample type genomic
Source name LNCaP cells
Organism Homo sapiens
Characteristics tissue: prostate
cell line: LNCaP
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_R02C02
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 0.525162338
cg00212031 0.997622444
cg00213748 0.687671233
cg00214611 0.609764089
cg00455876 0.723182572
cg01707559 0.075869937
cg02004872 0.300521622
cg02011394 0.96325167
cg02050847 0.974630787
cg02233190 0.005134116
cg02494853 0.0024306
cg02839557 0
cg02842889 0.013044215
cg03052502 0.983131011
cg03155755 0.869229709
cg03244189 0.601255129
cg03443143 0.453484062
cg03683899 0.005688674
cg03695421 0.04838013
cg03706273 0.464371008

Total number of rows: 485577

Table truncated, full table size 10816 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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