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Sample GSM979885 Query DataSets for GSM979885
Status Public on May 13, 2013
Title pDR2-sense-Alu_Hygromycin_added-3
Sample type RNA
 
Source name pDR2-sense-Alu_Hygromycin_added
Organism Homo sapiens
Characteristics cell line: HEK293
cell type: human embryonic kidney cells
vector transfection: pDR2-sense-Alu
hygromycin treatment: added
Treatment protocol Transfection with null pDR2 vector or pDR2-Alu vector, cultured with Hygromycin selection, then some samples were further cultured without Hygromycin.
Growth protocol Maintained in Dulbecco's Modified Eagle's Medium (DMEM) containing 10% fetal bovine serum and 250 ug of G418 per ml.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Standard Affymetrix protocol. An in vitro transcription (IVT) with biotinylated ribonucleotide analog was performed to generate biotin-labeled amplified RNA (aRNA) using the GeneChip 3' IVT Express kit (Affymetrix, Santa Clara, CA). The aRNAs were then purified by magnetic beads and fragmented for the subsequent hybridization according to the manufacturer's protocol.
 
Hybridization protocol Standard Affymetrix protocol. Affymetrix Human PrimeView arrays were used (Affymetrix, Santa Clara, CA).
Scan protocol Standard Affymetrix protocol. Fluorescent signal was scanned by GeneChip Scanner 3000 7G (Affymetrix, Santa Clara, CA) to produce digital images and then converted and summarized to intensity readings per probe sets.
Description 12S219U020
Gene expression data upon transfections.
Data processing The entire set of 18 microarrays were normalized by the RMA algorithm using the RMAExpress software.
 
Submission date Aug 01, 2012
Last update date May 13, 2013
Contact name Kung-Hao Liang
Organization name Chang Gung Memorial Hospital
Street address Tung Hwa North Road
City Taipei
ZIP/Postal code 10507
Country Taiwan
 
Platform ID GPL15207
Series (1)
GSE39822 Post-transcriptional regulation by Alu within mRNA

Data table header descriptions
ID_REF
VALUE Normalized log2 RMA intensity

Data table
ID_REF VALUE
11715100_at 3.85557
11715101_s_at 5.507623
11715102_x_at 4.092686
11715103_x_at 5.114318
11715104_s_at 4.743134
11715105_at 2.932703
11715106_x_at 4.550589
11715107_s_at 4.52699
11715108_x_at 3.009279
11715109_at 3.725413
11715110_at 5.686612
11715111_s_at 7.89916
11715112_at 2.712704
11715113_x_at 7.911043
11715114_x_at 8.032011
11715115_s_at 2.642271
11715116_s_at 4.342534
11715117_x_at 2.370018
11715118_s_at 3.305616
11715119_s_at 2.977233

Total number of rows: 49372

Table truncated, full table size 1084 Kbytes.




Supplementary file Size Download File type/resource
GSM979885_12S219U020.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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