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Sample GSM847571 Query DataSets for GSM847571
Status Public on Jan 18, 2012
Title LNCAP_3
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_R03C02
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 0.440319772
cg00212031 0.999463135
cg00213748 0.61498708
cg00214611 0.451291628
cg00455876 0.776236429
cg01707559 0.052612994
cg02004872 0.297029703
cg02011394 0.950019502
cg02050847 0.941075678
cg02233190 0
cg02494853 0.007997731
cg02839557 0.020189043
cg02842889 0.011173919
cg03052502 0.982023473
cg03155755 0.888688327
cg03244189 0.551131008
cg03443143 0.437581801
cg03683899 0.016725205
cg03695421 0.047038958
cg03706273 0.45507823

Total number of rows: 485577

Table truncated, full table size 10806 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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