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Sample GSM231999 Query DataSets for GSM231999
Status Public on Jul 01, 2008
Title LNCaP HOXC6 siRNA, biological rep 2
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
VALUE MAS5.0 signal intensity

Data table
AFFX-BioB-5_at 407.1 P 0.000857
AFFX-BioB-M_at 857.2 P 0.000258
AFFX-BioB-3_at 416.1 P 0.000095
AFFX-BioC-5_at 1170.4 P 0.00006
AFFX-BioC-3_at 852.6 P 0.000052
AFFX-BioDn-5_at 1097.2 P 0.000044
AFFX-BioDn-3_at 4695.6 P 0.000095
AFFX-CreX-5_at 9487.7 P 0.000044
AFFX-CreX-3_at 13340.8 P 0.000044
AFFX-DapX-5_at 10.7 A 0.559354
AFFX-DapX-M_at 46 A 0.131361
AFFX-DapX-3_at 3.7 A 0.966323
AFFX-LysX-5_at 23.1 A 0.195266
AFFX-LysX-M_at 28.9 A 0.39692
AFFX-LysX-3_at 14.1 A 0.41138
AFFX-PheX-5_at 2.3 A 0.9273
AFFX-PheX-M_at 16.6 A 0.645547
AFFX-PheX-3_at 26.7 A 0.631562
AFFX-ThrX-5_at 23.6 A 0.5
AFFX-ThrX-M_at 25.2 A 0.250796

Total number of rows: 22283

Table truncated, full table size 583 Kbytes.

Supplementary file Size Download File type/resource
GSM231999.CEL.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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