NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM979883 Query DataSets for GSM979883
Status Public on May 13, 2013
Title pDR2-sense-Alu_Hygromycin_added-1
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 12S219U022
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 4.257017
11715101_s_at 5.596155
11715102_x_at 4.385128
11715103_x_at 4.915012
11715104_s_at 4.814711
11715105_at 2.808307
11715106_x_at 4.858389
11715107_s_at 4.209629
11715108_x_at 3.008638
11715109_at 3.960337
11715110_at 5.46991
11715111_s_at 7.813032
11715112_at 3.116579
11715113_x_at 7.683354
11715114_x_at 7.916833
11715115_s_at 2.340341
11715116_s_at 4.383243
11715117_x_at 2.305136
11715118_s_at 3.37334
11715119_s_at 3.107947

Total number of rows: 49372

Table truncated, full table size 1084 Kbytes.




Supplementary file Size Download File type/resource
GSM979883_12S219U022.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap