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Sample GSM847569 Query DataSets for GSM847569
Status Public on Jan 18, 2012
Title LNCAP_1
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_R01C02
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 0.489220383
cg00212031 0.972692308
cg00213748 0.740406321
cg00214611 0.489495798
cg00455876 0.773772205
cg01707559 0.073292671
cg02004872 0.246891652
cg02011394 0.961944312
cg02050847 0.973434744
cg02233190 0.010788171
cg02494853 0.010055453
cg02839557 0.005856684
cg02842889 0.014553015
cg03052502 0.986264453
cg03155755 0.851229673
cg03244189 0.56961277
cg03443143 0.445202911
cg03683899 0.002270851
cg03695421 0.041354039
cg03706273 0.45167169

Total number of rows: 485577

Table truncated, full table size 10821 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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