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Sample GSM1500959 Query DataSets for GSM1500959
Status Public on Nov 03, 2014
Title genomic DNA from human liver of subject S11a16962
Sample type genomic
Source name Liver
Organism Homo sapiens
Characteristics subjectid: S11a16962
Sex: male
dna.extraction.method: AllPrep
age: 39
dnamage: 47.77632238
ageaccelerationresidualbasedontrainingandtestdata: 3.275314023
bmi: 52.5
diseasestatus: NAFLD
nafldactivityscore: 3
liversteatosis: 3
liverinflammation: 0
fibrosis: 1
nas.ballooning: 0
dnamageadjustedagebmi: 1.445054347
dnamageadjustedagebmigender: -0.842037654
smokingstatus: no
smokingpackyears: 0
Treatment protocol Standard Illumina Protocol
Growth protocol DNA extracted from fresh frozen tissue
Extracted molecule genomic DNA
Extraction protocol For homogenisation of five to ten milligram frozen tissue and subsequent nucleic acid isolation, tubes with 1.4 mm ceramic beads (Precellys, Villeurbanne, France) and the AllPrep DNA/RNA Mini Kit (QIAGEN, Hilden, Germany) were used.
Label Cy3, Cy5
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description genomic DNA from human liver tissue
Data processing BeadStudio software v3.2.
Submission date Sep 09, 2014
Last update date Nov 03, 2014
Contact name Steve Horvath
Organization name University of California, Los Angeles
Department Human Genetics
Lab Horvath
Street address 695 Charles E. Young Drive South, Box 708822
City Los Angeles
State/province CA
ZIP/Postal code 90095-7088
Country USA
Platform ID GPL13534
Series (2)
GSE61256 Obesity accelerates epigenetic aging of human liver
GSE61258 Human Liver Illumina Inf 450 DNA methylation data

Data table header descriptions
VALUE Average Beta (no special processing)

Data table
cg00000029 0.3045907
cg00000108 0.5457961
cg00000109 0.8526374
cg00000165 0.1649045
cg00000236 0.7886026
cg00000289 0.6307762
cg00000292 0.6650915
cg00000321 0.2401274
cg00000363 0.5449278
cg00000622 0.02377688
cg00000658 0.7555615
cg00000714 0.1642666
cg00000721 0.9033323
cg00000734 0.08415636
cg00000769 0.07142399
cg00000807 0.6164579
cg00000884 0.7908732
cg00000905 0.06897273
cg00000924 0.4748649
cg00000948 0.84791

Total number of rows: 485577

Table truncated, full table size 10032 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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