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Sample GSM1504978 Query DataSets for GSM1504978
Status Public on Sep 17, 2014
Title Liver_79
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 47
gender: female
bmi: 59.238
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 0.759971595
cg00001583 0.070114878
cg00002028 0.074456993
cg00002719 0.112324824
cg00002837 0.391568282
cg00003202 0.039918414
cg00003287 0.230660728
cg00007036 0.953602981
cg00007898 0.040040232
cg00008004 0.140454157
cg00008647 0.125778073
cg00009292 0.121159315
cg00011717 0.899807691
cg00014168 0.596863454
cg00015286 0.6772707
cg00016238 0.841785751
cg00017221 0.088787589
cg00017437 0.117630923
cg00021123 0.881936521
cg00021576 0.070732383

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504978_5822943002_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504978_5822943002_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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