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Sample GSM1215392 Query DataSets for GSM1215392
Status Public on Feb 26, 2014
Title Bone marrow_red_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone marrow_red
gender: female
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 0.546446093
cg00000108 0.955334189
cg00000109 0.860019482
cg00000165 0.238304043
cg00000236 0.832032237
cg00000289 0.606672639
cg00000292 0.739748865
cg00000321 0.382893711
cg00000363 0.393835086
cg00000622 0
cg00000658 0.812815624
cg00000714 0.210991825
cg00000721 0.880313697
cg00000734 0.093070722
cg00000769 0.040943702
cg00000807 0.711752485
cg00000884 0.894184838
cg00000905 0.09209282
cg00000924 0.520130703
cg00000948 0.79863812

Total number of rows: 485577

Table truncated, full table size 10537 Kbytes.

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

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