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Series GSE107080 Query DataSets for GSE107080
Status Public on Nov 17, 2017
Title DNA methylation signatures of illicit drug injection and hepatitis C are associated with HIV frailty II
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary This dataset is used as replication set for Illumina 450k. Genome wide DNA methylation profiling of IDU+/HCV+ and IDV-/HCV- individuals for DNA samples extracted from peripheral blood. The Illumina Infinium Human DNA methylation 450 Beadchip was used to obtain DNA methylation profiles across approximately 480,000 CpGs. Samples included 216 IDU+/HCV+ and 170 IDU-/HCV- individuals. The goal was to identify genome-wide differentially methylated CpG sites between IDU+/HCV+ and IDU-/HCV- samples.
 
Overall design Bisulfite converted DNA from the 405 DNA samples were hybridized to the Illumina Infinium MethylationEPIC Beadchip. The samples were extracted from whole blood. The subjects including 100 IDU+/HCV+ and 305 IDU-/HCV- were recruited from the Veteran Aging Cohort Study. All subjects were inform consented and the study protocol was approved by Connecticut Veteran Affair Healthcare System IRB and Yale Human Research Protection Program at Yale University.
 
Contributor(s) Xu K, Zhang X, Justice A
Citation(s) 29269866
Submission date Nov 17, 2017
Last update date Jan 20, 2019
Contact name Ke Xu
E-mail(s) [email protected]
Organization name Yale University
Department department of psychiatry
Street address 300 George St.
City New Haven
ZIP/Postal code 06511
Country USA
 
Platforms (1)
GPL21145 Infinium MethylationEPIC
Samples (405)
GSM2860641 genomic DNA from 201172530004_R01C01
GSM2860642 genomic DNA from 201172530005_R01C01
GSM2860643 genomic DNA from 201172220008_R01C01
This SubSeries is part of SuperSeries:
GSE107082 DNA methylation signatures of injection illicit drug use (IDU) and hepatitis C (HCV) predict HIV pathophysiologic frailty
Relations
BioProject PRJNA418969

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE107080_MatrixProcessed.txt.gz 294.5 Mb (ftp)(http) TXT
GSE107080_MethylatedSignal.txt.gz 778.0 Mb (ftp)(http) TXT
GSE107080_RAW.tar 161.2 Mb (http)(custom) TAR
Processed data are available on Series record
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