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Sample GSM241946 Query DataSets for GSM241946
Status Public on May 11, 2009
Title PBMC Group B, biological rep 1 (HumanRef-8)
Sample type RNA
 
Source name PBMC Group B
Organism Homo sapiens
Characteristics Male
Extracted molecule total RNA
Extraction protocol Peripheral blood was collected from each subject at the beginning of the workday around 0900 hr and processed within 6 hr of collection. PBMC were isolated by Ficoll-Paque and lysed in RLT buffer (Qiagen). Lysates were frozen at -80°C and later thawed and extracted using Qiagen's RNeasy mini kit according to the manufacturer's instructions.
Label biotin
Label protocol cDNA was generated from total RNA (200ng) and used as a template for the in vitro transcription of biotin-labeled cRNA using the Illumina® RNA Amplification kit (Ambion, Austin, TX) according to the manufacturer’s protocol.
 
Hybridization protocol Following fragmentation, 850ng of cRNA were hybridized for 16 hr at 55C on Illumina Sentrix HumanRef-8 chips. Hybridization, washing and detection were performed using Illumina's Gene Expression System Buffer Kit according to the manufacturer's instructions.
Scan protocol Scanning was performed using a BeadArray Reader and BeadScan software (Illumina)
Description none
Data processing Data were normalized using quantile normalization from the Bioconductor Affymetrix package.
 
Submission date Nov 08, 2007
Last update date May 11, 2009
Contact name Cliona McHale
E-mail(s) cmchale@berkeley.edu
Phone 510-6435100
Organization name University of California Berkeley
Department School of Public Health
Lab Smith
Street address 384 Li Ka Shing Center
City Berkeley
State/province CA
ZIP/Postal code 94720-3370
Country USA
 
Platform ID GPL2700
Series (1)
GSE9569 Gene expression in benzene-exposed workers

Data table header descriptions
ID_REF
VALUE Normalized signal intensity.

Data table
ID_REF VALUE
GI_20127571-S 103.9
GI_14165459-A 166.4
GI_44890066-S 1134.2
GI_26787974-S 158
GI_21362002-S 5924.6
GI_9790902-S 160.6
GI_37544007-S 113.2
GI_27885012-S 717.5
GI_37542672-S 143.3
GI_4757793-S 145.5
GI_34147493-S 103.8
GI_37655156-S 274.8
GI_5730054-S 2499.4
GI_26787973-S 625.3
GI_14149998-S 125.7
GI_13346499-S 114.9
GI_42660305-S 540.1
GI_22547158-S 223
GI_44955928-S 17026.3
GI_19923347-S 127.2

Total number of rows: 24354

Table truncated, full table size 471 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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