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Sample GSM1500914 Query DataSets for GSM1500914
Status Public on Nov 03, 2014
Title genomic DNA from human liver of subject S11a113c2
Sample type genomic
 
Source name Liver
Organism Homo sapiens
Characteristics subjectid: S11a113c2
Sex: male
dna.extraction.method: AllPrep
age: 70
dnamage: 55.05315183
ageaccelerationresidualbasedontrainingandtestdata: -6.828007389
bmi: 30.1
diseasestatus: NASH
nafldactivityscore: 6
liversteatosis: 3
liverinflammation: 0
fibrosis: 0
nas.ballooning: 3
dnamageadjustedagebmi: -7.043425475
dnamageadjustedagebmigender: -9.266701626
smokingstatus: no
smokingpackyears: 2.5
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
E-mail(s) shorvath@altoslabs.com
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
ID_REF
VALUE Average Beta (no special processing)

Data table
ID_REF VALUE
cg00000029 0.2510953
cg00000108 0.7560416
cg00000109 0.7526966
cg00000165 0.2393699
cg00000236 0.7726746
cg00000289 0.4622495
cg00000292 0.5508237
cg00000321 0.1411284
cg00000363 0.09919246
cg00000622 0.01316297
cg00000658 0.7164528
cg00000714 0.0710551
cg00000721 0.8185066
cg00000734 0.07027386
cg00000769 0.04911302
cg00000807 0.7832143
cg00000884 0.5830625
cg00000905 0.1005553
cg00000924 0.5810058
cg00000948 0.6600078

Total number of rows: 485577

Table truncated, full table size 10049 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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