|
| Status |
Public on Nov 17, 2017 |
| Title |
genomic DNA from 201172540038_R03C01 |
| Sample type |
genomic |
| |
|
| Source name |
201172540038_R03C01
|
| Organism |
Homo sapiens |
| Characteristics |
age: 47
Sex: Male
race: White
hiv: 1
idu: 0
hcv_dx: 0
smoking: 0
artadherence: 0
wbc_new: 7.5
cd8t_850k: 0.27
cd4t_850k: 0
gran_850k: 0.42
nk_850k: 0.18
bcell_850k: 0.07
mono_850k: 0.1
log10vl: 3.81769755476302
tissue: whole blood
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNAs were extracted from whole blood using the standard protocol.
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium MethylationEPIC Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Description |
201172540038_R03C01_Grn.idat
201172540038_R03C01_Red.idat
Sample 254
whole blood sample
|
| Data processing |
GenomeStudio V2011.1
MatrixProcessed.txt contains ssNoob normalized Average Beta; the signals of common probes between 450k and EPIC were provided.
MethylatedSignal.txt contains Unmethylated and methylated signal intensities
|
| |
|
| Submission date |
Nov 17, 2017 |
| Last update date |
Nov 17, 2017 |
| 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 |
| |
|
| Platform ID |
GPL21145 |
| Series (2) |
| GSE107080 |
DNA methylation signatures of illicit drug injection and hepatitis C are associated with HIV frailty II |
| GSE107082 |
DNA methylation signatures of injection illicit drug use (IDU) and hepatitis C (HCV) predict HIV pathophysiologic frailty |
|
