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Sample GSM697513 Query DataSets for GSM697513
Status Public on Sep 25, 2011
Title Treated HAND brain 5, biological rep1
Sample type RNA
 
Source name Homo sapiens postmortem brain tissue
Organism Homo sapiens
Characteristics treatment: antiretroviral treated
tissue: postmortem brain
disease state: HIV1 with HIV-1-associated neurocognitive disorders
Extracted molecule total RNA
Extraction protocol RNA was isolated from human brain tissue by RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturer’s protocol.
Label biotin
Label protocol Biotin labeling using NuGen Encore Biotin Module.
 
Hybridization protocol The samples were hybridized to Affymetrix Human Genome 133 plus 2.0 arrays. Washing and staining of all arrays were carried out in the Affymetrix fluidics module as per the manufacturer's protocol.
Scan protocol The detection and quantitation of target hybridization was performed with an Affymetrix GeneChip Scanner.
Description gene expression data for portmortem brain tissue uninfected patients
Data processing The .cel data files generated by the Affymetrix microarray hybridization platform were analyzed by the ArrayAssist software (Stratagene, Santa Clara, CA). Probe level analysis was performed using the Robust Microarray Average (RMA) algorithm.
 
Submission date Mar 24, 2011
Last update date Sep 25, 2011
Contact name Alejandra Borjabad
E-mail(s) ab2612@columbia.edu
Phone 9175574628
Organization name St.Luke's-Roosevelt Hospital Center
Department Medicine
Lab Molecular Virology
Street address 432 West 58th, Street
City New York
State/province NY
ZIP/Postal code 10019
Country USA
 
Platform ID GPL570
Series (1)
GSE28160 Significant Effects of Antiretroviral Therapy on Global Gene Expression in Brain Tissues of Patients with HIV-Associated Neurocognitive Disorders

Data table header descriptions
ID_REF
VALUE RMA normalized signal by ArrayAssist

Data table
ID_REF VALUE
1007_s_at 0.8157034
1053_at 0.4795065
117_at 0.12338686
121_at -0.29482222
1255_g_at -0.12919807
1294_at 0.074430466
1316_at -0.34305143
1320_at -0.3722334
1405_i_at 0.120070934
1431_at 0.27559996
1438_at -0.20405102
1487_at 0.3487816
1494_f_at -0.22054958
1552256_a_at 0.16824007
1552257_a_at -0.13182116
1552258_at 0.10626125
1552261_at -0.068754196
1552263_at 0.33901787
1552264_a_at -0.01853323
1552266_at -0.22280884

Total number of rows: 54675

Table truncated, full table size 1187 Kbytes.




Supplementary file Size Download File type/resource
GSM697513_10103_D1.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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