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Sample GSM1215426 Query DataSets for GSM1215426
Status Public on Feb 26, 2014
Title Bone_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone
gender: male
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from 25 mg samples of the tissue specimens using the NucleoSpin® Tissue kit (Macherey-Nagel GmbH, Düren, Germany)
Label Cy5 and Cy3
Label protocol According to Illumina protocol
Hybridization protocol According to Illumina protocol
Scan protocol According to Illumina protocol
Data processing The raw data were subject to quality control and normalization using the standard protocols suggested for the bioconductor R package minfi. All probes containing single nucleotide polymorphisms and CpG sites from the X and Y chromosomes were removed from the analysis.
matrix processed value definition: Average Beta
matrix signal intensities value definition: Matrix signal intensities (non-normalized) contains unmethylated (signal A) and methylated (Signal B) signal intensities
Submission date Aug 26, 2013
Last update date Feb 26, 2014
Contact name Kaie Lokk
Organization name University of Tartu
Street address Riia 23
City Tartu
ZIP/Postal code 501010
Country Estonia
Platform ID GPL13534
Series (1)
GSE50192 DNA methylome profiling of human tissues identifies global and tissue-specific methylation patterns

Data table header descriptions
VALUE minfi normalized signal intensity

Data table
cg00000029 0.286872116
cg00000108 0.907546385
cg00000109 0.930958704
cg00000165 0.185748592
cg00000236 0.819956666
cg00000289 0.699455418
cg00000292 0.450302393
cg00000321 0.354805964
cg00000363 0.263105884
cg00000622 0
cg00000658 0.875034817
cg00000714 0.128692315
cg00000721 1
cg00000734 0.103903496
cg00000769 0.027203889
cg00000807 0.793110437
cg00000884 0.963305409
cg00000905 0.08432336
cg00000924 0.587100905
cg00000948 0.903011146

Total number of rows: 485577

Table truncated, full table size 10405 Kbytes.

Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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