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Sample GSM594831 Query DataSets for GSM594831
Status Public on Sep 29, 2010
Title U1 vs control
Sample type RNA
 
Channel 1
Source name RNA from U1 morpholino treated cells
Organism Homo sapiens
Characteristics cell line: HeLa
Treatment protocol Cells were transfected with antisense morpholino and culture for 8 hours or treated with methanol or spliceostatin A for 8 hours.
Growth protocol HeLa cells were grown in DMEM + 10% FBS in humdified incubator with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extractedusing TRIzol according to manufacturer's recommendation.
Label biotin
Label protocol Labelled cDNA targets were prepared using the GeneChip WT amplified Double-Stranded cDNA Synthesis Kit and the GeneChip WT Double-Stranded DNA Terminal Labelling Kit according to the manufacturer’s directions.
 
Channel 2
Source name RNA from control morpholino treated cells
Organism Homo sapiens
Characteristics cell line: HeLa
Treatment protocol Cells were transfected with antisense morpholino and culture for 8 hours or treated with methanol or spliceostatin A for 8 hours.
Growth protocol HeLa cells were grown in DMEM + 10% FBS in humdified incubator with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extractedusing TRIzol according to manufacturer's recommendation.
Label biotin
Label protocol Labelled cDNA targets were prepared using the GeneChip WT amplified Double-Stranded cDNA Synthesis Kit and the GeneChip WT Double-Stranded DNA Terminal Labelling Kit according to the manufacturer’s directions.
 
 
Hybridization protocol The end-labelled cDNA targets were applied to GeneChip human tiling 2.0R E arrays. Hybridization was performed using F450-001 fluidics wash and stain script on the Affymetrix GeneChip Fluidics Station 450.
Scan protocol Arrays were scanned using the Affymetrix GCS 3000 7G GeneChip Operating Software (GCOS).
Description Affected regions by U1 snRNP inhibition. Biological Rep 1-3
Data processing For tiling array analysis, we produced .BAR files from the .CEL files using the Affymetrix Tiling Analysis Software (TAS) version 1.1 to visualize on the Integrated Genome Browser (IGB).
 
Submission date Sep 16, 2010
Last update date Sep 16, 2010
Contact name Daisuke Kaida
E-mail(s) kaida@med.u-toyama.ac.jp
Organization name University of Toyama
Department Frontier Research Core for Life Sciences
Street address 2630 Sugitani
City Toyama
State/province Toyama
ZIP/Postal code 930-0194
Country Japan
 
Platform ID GPL4914
Series (1)
GSE24179 Transcriptome changes in splicing inhibited cells

Supplementary file Size Download File type/resource
GSM594831_Cont_1_HuTilingE.CEL.gz 23.4 Mb (ftp)(http) CEL
GSM594831_Cont_2_HuTilingE.CEL.gz 23.5 Mb (ftp)(http) CEL
GSM594831_Cont_3_HuTilingE.CEL.gz 22.8 Mb (ftp)(http) CEL
GSM594831_U1_1_HuTilingE.CEL.gz 22.4 Mb (ftp)(http) CEL
GSM594831_U1_2_HuTilingE.CEL.gz 22.5 Mb (ftp)(http) CEL
GSM594831_U1_3_HuTilingE.CEL.gz 22.3 Mb (ftp)(http) CEL
GSM594831_U1_vs_Cont_pvalue.bar.gz 19.5 Mb (ftp)(http) BAR
GSM594831_U1_vs_Cont_signal.bar.gz 36.1 Mb (ftp)(http) BAR
Processed data provided as supplementary file

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