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Sample GSM1505087 Query DataSets for GSM1505087
Status Public on Sep 17, 2014
Title Muscle_41
Sample type genomic
Source name severely obese patient_muscle
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 36
bmi: 46.168
tissue: muscle
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from liver samples using the AllPrep DNA/RNA/Protein Mini kit (QIAgen, Hilden, Germany) according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using HiScan Reader using standard recommended Illumina scanner setting
Description 5822791002_R03C01
Data processing SWAN Normalization and M-value transformation, using minfi (v.1.8.9) and R (v.3.0.2)
Submission date Sep 16, 2014
Last update date Sep 17, 2014
Contact name Lude Franke
Organization name UMCG
Department Genetics
Street address Hanzeplein 1
City Groningen
State/province Please Select
ZIP/Postal code 9713 GZ
Country Netherlands
Platform ID GPL13534
Series (2)
GSE61452 Epigenome analysis of the human muscle
GSE61454 DNA methylation from severely obese samples in liver, muscle, visceral adipose tissue and subcutaneous adipose samples

Data table header descriptions
VALUE SWAN Normalized M-value

Data table
cg00001349 0.903461728
cg00001583 0.059081233
cg00002028 0.068165532
cg00002719 0.154190154
cg00002837 0.431082182
cg00003202 0.027492796
cg00003287 0.455130737
cg00007036 0.94494483
cg00007898 0.078847226
cg00008004 0.204310371
cg00008647 0.094306555
cg00009292 0.147732511
cg00011717 0.791192281
cg00014168 0.567940671
cg00015286 0.702035118
cg00016238 0.834172598
cg00017221 0.089182553
cg00017437 0.046991836
cg00021123 0.611346097
cg00021576 0.092834317

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505087_5822791002_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505087_5822791002_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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