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Sample GSM1215444 Query DataSets for GSM1215444
Status Public on Feb 26, 2014
Title Bone marrow_yellow_SJ600-5
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone marrow_yellow
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 0.385115682
cg00000108 0.93972568
cg00000109 0.865203008
cg00000165 0.175181753
cg00000236 0.792673212
cg00000289 0.656236791
cg00000292 0.561248361
cg00000321 0.35049855
cg00000363 0.301519257
cg00000622 0.010794354
cg00000658 0.809819332
cg00000714 0.149201176
cg00000721 0.917931599
cg00000734 0.07952827
cg00000769 0.06739594
cg00000807 0.724781666
cg00000884 0.872019751
cg00000905 0.049449462
cg00000924 0.507756023
cg00000948 0.844984588

Total number of rows: 485577

Table truncated, full table size 10762 Kbytes.

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

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