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Sample GSM1505086 Query DataSets for GSM1505086
Status Public on Sep 17, 2014
Title Muscle_106
Sample type genomic
Source name severely obese patient_muscle
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 34
bmi: 44.359
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_R01C02
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 0.756040479
cg00001583 0.082151398
cg00002028 0.070940364
cg00002719 0.262443628
cg00002837 0.39849719
cg00003202 0.042236848
cg00003287 0.34153809
cg00007036 0.922051411
cg00007898 0.048767716
cg00008004 0.154763672
cg00008647 0.078748372
cg00009292 0.120262649
cg00011717 0.876240549
cg00014168 0.655175111
cg00015286 0.792370231
cg00016238 0.778260513
cg00017221 0.112789186
cg00017437 0.06854072
cg00021123 0.655753039
cg00021576 0.131484576

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505086_5822791002_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1505086_5822791002_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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