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Sample GSM1087635 Query DataSets for GSM1087635
Status Public on Apr 01, 2013
Title SNDISH12, biological rep1
Sample type RNA
 
Source name SND1 knockdown 1
Organism Homo sapiens
Characteristics cell line: QGY-7703
cell type: human hepatocellular carcinoma
shRNA: SND1
Treatment protocol No treatment was done.
Growth protocol Steady-state proliferating cells.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed using QIAGEN columns according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 250 ng total RNA (GeneChip 3' IVT Express Kit, P/N 702646 Rev. 8, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133A 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 using protocol FS450_0002.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Description SNDISH12_1
Gene expression data from SND1 knockdown 1.
Data processing The data were analyzed with Affymetrix Expression Console software using Affymetrix default analysis settings and RMA as the normalization method.
 
Submission date Feb 23, 2013
Last update date Apr 01, 2013
Contact name Myrna Serrano
Organization name Virginia Commonwealth University
Lab NARF
Street address 1101 East Marshall St
City Richmond
State/province VA
ZIP/Postal code 23298
Country USA
 
Platform ID GPL571
Series (1)
GSE44601 Expression data from SND1 knockdown clones of human HCC cell line QGY-7703

Data table header descriptions
ID_REF
VALUE Log2 RMA signal

Data table
ID_REF VALUE
1007_s_at 9.705725
1053_at 8.870529
117_at 5.121048
121_at 7.361355
1255_g_at 2.863501
1294_at 5.162878
1316_at 6.226923
1320_at 3.993203
1405_i_at 4.273943
1431_at 3.827866
1438_at 5.272043
1487_at 8.815149
1494_f_at 5.273427
1598_g_at 8.130227
160020_at 5.902162
1729_at 7.540656
177_at 5.229774
1773_at 5.5489
179_at 7.706875
1861_at 6.888076

Total number of rows: 22277

Table truncated, full table size 431 Kbytes.




Supplementary file Size Download File type/resource
GSM1087635_SNDISH12-1_HG-U133A_2_.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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