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Sample GSM231998 Query DataSets for GSM231998
Status Public on Jul 01, 2008
Title LNCaP HOXC6 siRNA, biological rep 1
Sample type RNA
 
Source name LNCaP cells, 48 hours post siRNA knockdown of HOXC6 transfection
Organism Homo sapiens
Characteristics LNCaP cells after siRNA knockdown of HOXC6 transfection
Treatment protocol Cells were transiently transfected with 100nM siRNA or 4ug vector DNA.
Growth protocol LNCaP cells grown in T-medium containing 10% FBS at 37C and 5% CO2.
Extracted molecule total RNA
Extraction protocol Rneasy extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1-3 ug total RNA.
 
Hybridization protocol cRNA probes were hybridized overnight to the Human Genome U133 GeneChip set. GeneChips were washed in the Affymetrix GeneChip Fluidics WorkStation.
Scan protocol GeneChips were scanned according to manufacturer's protocol.
Description Gene expression data from LNCaP cells with HOXC6 siRNA knockdown
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) to filter genes that were called present in fewer that 50% of samples.
 
Submission date Sep 27, 2007
Last update date Aug 14, 2011
Contact name Colleen D McCabe
Organization name Emory University
Street address 615 Michael St
City Atlanta
State/province GA
ZIP/Postal code 30322
Country USA
 
Platform ID GPL96
Series (1)
GSE9182 Expression data from overexpression and knockdown of HOXC6 in LNCaP cells

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 324.5 P 0.000581
AFFX-BioB-M_at 570.4 P 0.000169
AFFX-BioB-3_at 242.8 P 0.000258
AFFX-BioC-5_at 998.4 P 0.000044
AFFX-BioC-3_at 644.3 P 0.000044
AFFX-BioDn-5_at 551.1 P 0.000044
AFFX-BioDn-3_at 4020 P 0.00007
AFFX-CreX-5_at 8094.2 P 0.000044
AFFX-CreX-3_at 11822.7 P 0.000044
AFFX-DapX-5_at 22.6 A 0.175328
AFFX-DapX-M_at 26.6 A 0.131361
AFFX-DapX-3_at 1.8 A 0.996405
AFFX-LysX-5_at 13.8 A 0.455413
AFFX-LysX-M_at 19 A 0.544587
AFFX-LysX-3_at 5.1 A 0.58862
AFFX-PheX-5_at 4.4 A 0.876428
AFFX-PheX-M_at 9.4 A 0.712257
AFFX-PheX-3_at 37.7 A 0.340661
AFFX-ThrX-5_at 6.3 A 0.783476
AFFX-ThrX-M_at 22.4 A 0.455413

Total number of rows: 22283

Table truncated, full table size 582 Kbytes.




Supplementary file Size Download File type/resource
GSM231998.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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