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Sample GSM1215408 Query DataSets for GSM1215408
Status Public on Feb 26, 2014
Title Bone marrow_yellow_KA522
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 0.444658948
cg00000108 0.913990055
cg00000109 0.838395538
cg00000165 0.152768844
cg00000236 0.797251905
cg00000289 0.572706401
cg00000292 0.644527647
cg00000321 0.4045606
cg00000363 0.214690643
cg00000622 0.011274428
cg00000658 0.80779806
cg00000714 0.160118013
cg00000721 0.873144329
cg00000734 0.077419949
cg00000769 0.042128371
cg00000807 0.701657283
cg00000884 0.875742638
cg00000905 0.073701362
cg00000924 0.534744031
cg00000948 0.78917668

Total number of rows: 485577

Table truncated, full table size 10823 Kbytes.

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

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