NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1438187 Query DataSets for GSM1438187
Status Public on Jun 09, 2015
Title genomic DNA from Brain Occipital of subject 51
Sample type genomic
 
Source name Brain Occipital
Organism Homo sapiens
Characteristics subjectid: 51
tissue: Brain Occipital
sexpredictedusingdnamethdata: male
dna.extraction.method: AllPrep
age: 44.74205915
dnamethylationage: 43.26648368
ageaccelerationresidualwithrespecttocontrols: 6.50315239380605
ageaccelerationresidualwithrespecttocontrolscrbmonly: 5.94657103258313
ageaccelerationresidualwithrespecttocontrolsoccipitalonly: NA
postmorteminterval: NA
hivstatus: HIV
hiv.viralloadinblood: 3570
hivstatusdetectableviralloadinblood: HIV+VLoad+
hiv.viralloadincerebrospinalfluid: 50
Treatment protocol Standard Illumina Protocol
Growth protocol DNA extracted from fresh frozen brain tissue
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from fresh frozen tissue using AllPrep DNA/RNA mini kit according to standard instructions
Label Cy3 and Cy5
Label protocol Standard Illumina Protocol
 
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridized 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 Sample43
genomic DNA from Brain Occipital of HIV subject
Data processing BeadStudio software v3.2.
 
Submission date Jul 16, 2014
Last update date Jun 09, 2015
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 (1)
GSE59457 DNA methylation levels of various brain regions from HIV+ and HIV- subjects

Data table header descriptions
ID_REF
VALUE Average Beta

Data table
ID_REF VALUE
cg00000029 0.5049804
cg00000108 0.882246
cg00000109 0.7310699
cg00000165 0.130363
cg00000236 0.7994435
cg00000289 0.5933273
cg00000292 0.6818941
cg00000321 0.4752834
cg00000363 0.1687758
cg00000622 0.02215743
cg00000658 0.7662151
cg00000714 0.1000307
cg00000721 0.8858988
cg00000734 0.05557064
cg00000769 0.08067001
cg00000807 0.8797206
cg00000884 0.798192
cg00000905 0.07539425
cg00000924 0.6651751
cg00000948 0.9084336

Total number of rows: 485577

Table truncated, full table size 10036 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap