NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM343391 Query DataSets for GSM343391
Status Public on Jan 16, 2009
Title HeLa_siAgo2_24_rep2
Sample type RNA
 
Source name HeLa total RNA, 24hrs after transfection of siRNA against Ago2
Organism Homo sapiens
Characteristics Cervical cancer cell line
Treatment protocol 32nM of siRNAs (Samchully Phamaceuticals) were transfected into HeLa cells with lipofectamine 2000 (InvitroGen).
Growth protocol HeLa cells were cultured in DMEM supplemented with 10% FBS.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA (Wt_sensetarget_label_manual(updated manual)_1, 2007, Affymetrix).
 
Hybridization protocol Following fragmentation, 2.3 ug of cDNA were hybridized for 17 hr at 45C on GeneChip Human Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450. Hybridization cocktails containing 5 to 5.5 µg of fragmented, end-labeled single-stranded cDNA were prepared and hybridized to GeneChip Human gene 1.0 ST arrays
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Description Expression changes of HeLa mRNA after Ago2 knockdown for 24hrs
Data processing All gene array data was analyzed using tools in Expression consol software (Affymetrix). The Robust Multi-array Analysis (RMA) (Irizarry, Hobbs, Collin, Beazer-Barclay, Antonellis, Scherf, and Speed 2003) algorithm was used for probeset (gene-level) intensity analysis.
 
Submission date Nov 18, 2008
Last update date Jan 16, 2009
Contact name Jinju Han
Organization name Seoul National University
Lab Bd. 504, Rm 501
Street address 599 Gwanangno, Gwanak-gu
City Seoul
ZIP/Postal code 151-742
Country South Korea
 
Platform ID GPL6244
Series (2)
GSE13638 Ago2 or Dicer knockdown effects on mRNA levels in HeLa
GSE13640 Effect of miRNA biogenesis factors on mRNA levels

Data table header descriptions
ID_REF
VALUE RMA processed signal

Data table
ID_REF VALUE
7896738 2.458686
7896740 3.051459
7896742 7.537455
7896744 7.136469
7896746 9.141279
7896748 9.488519
7896750 4.514234
7896752 9.606164
7896754 6.534264
7896756 4.939904
7896759 6.493118
7896761 7.522735
7896779 7.1072
7896798 6.572745
7896817 6.475427
7896822 8.138531
7896859 5.5881
7896861 3.327164
7896863 5.362684
7896865 6.716621

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.




Supplementary file Size Download File type/resource
GSM343391.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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