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Sample GSM1504945 Query DataSets for GSM1504945
Status Public on Sep 17, 2014
Title Liver_120
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 39
gender: female
bmi: 39.520
tissue: liver
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 Liver sample of Morbidly patient
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)
GSE61446 Epigenome analysis of the human liver
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 0.736477661
cg00001583 0.082806062
cg00002028 0.075026267
cg00002719 0.252018269
cg00002837 0.6159957
cg00003202 0.043894353
cg00003287 0.148612346
cg00007036 0.935078748
cg00007898 0.045643433
cg00008004 0.110431279
cg00008647 0.126568978
cg00009292 0.129331253
cg00011717 0.912494411
cg00014168 0.559873475
cg00015286 0.698113728
cg00016238 0.683331422
cg00017221 0.15026019
cg00017437 0.065648348
cg00021123 0.855233426
cg00021576 0.095222942

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504945_5822791012_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504945_5822791012_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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