NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM777486 Query DataSets for GSM777486
Status Public on Aug 10, 2012
Title A2058 Ctrl siRNA Rep2
Sample type RNA
 
Source name A2058 Ctrl siRNA
Organism Homo sapiens
Characteristics cell line: A2058
treatment: Control siRNA
Treatment protocol The cells were treated with CT16 siRNA or control siRNA for 48 h
Growth protocol The cells were maintained at 5% CO2 and 37°C in Dulbecco's Modified Eagle Medium (DMEM) (Invitrogen, Carlsbad, CA) supplemented with 10% fetal bovine serum.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent followed by purification with Qiagen’s RNeasy MiniKit, (cat no74106) according to the manufacturer’s protocol. The DNase treatment was included and done with Qiagen’s RNase free DNase Set (cat no 79254) according to Qiagen’s protocol. cRNA quality was controlled by BioRad’s Experion electrophoresis station.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Illumina TotalPrep RNA Amplification Kit
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description A2058 Ctrl siRNA Rep2
Data processing The microarray data were normalized using the quantile normalization method in Bioconductor (http://www.bioconductor.org)
 
Submission date Aug 12, 2011
Last update date Aug 10, 2012
Contact name Jyrki Heino
E-mail(s) jyrki.heino@utu.fi
Organization name University of Turku
Department Biochemistry
Street address Vatselankatu 2
City Turku
ZIP/Postal code 20014
Country Finland
 
Platform ID GPL6097
Series (2)
GSE31351 Transcriptomic analysis of the effect of CT16 (PAGE5) silencing by RNAi in A2058 melanoma cells
GSE31352 Transcriptomic analysis of CT16 (PAGE5) function in A2058 and WM-266-4 melanoma cells

Data table header descriptions
ID_REF
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
360450 163.3 0.58141068
1690139 208.18 0.01450231
5420594 344.55 0
3060411 207.95 0.01450231
450341 1226.47 0
5420324 225.84 0.00329598
730162 145.53 0.9222149
4200739 842.53 0
1090156 161.88 0.61041529
7050341 162.6 0.5939354
1500019 142.92 0.93935399
6860601 193.87 0.05207647
430184 289.27 0.0006592
3780725 358.68 0
1400671 169.53 0.42056691
2650605 170.08 0.40936058
1660441 879.62 0
5700086 183.92 0.13249835
1050280 1083.93 0
4210093 224.54 0.00329598

Total number of rows: 47296

Table truncated, full table size 1170 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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