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Sample GSM291473 Query DataSets for GSM291473
Status Public on Jul 01, 2008
Title NuclearRNA_20min_D
Sample type RNA
 
Source name FGF 20 min
Organism Mus musculus
Characteristics NIH3T3 cell
Treatment protocol Serum starvation 36 h, 50 ng/ml FGF 20 min
Growth protocol NIH3T3 cells were grown in Dulbecco’s modified Eagle’s medium (DMEM) containing 10% calf serum.
Extracted molecule nuclear RNA
Extraction protocol Nuclear RNA was isolated from buffer RLN-lysed pellet using a Qiagen RNeasy kit (see Qiagen's supplementary protocol). On-column DNase digestion. The rest of the protocols were adopted from Affymetrix WT double-stranded target assay manual (SuperScript III RT at 50 °C instead of SuperScript II RT at 42°C).
Label Biotin
Label protocol Standard Affymetrix protocol (WT double stranded DNA terminal labeling)
 
Hybridization protocol Standard Affymetrix protocol
Scan protocol Standard Affymetrix protocol
Description RNA mapping with nuclear RNA, FGF 20 min, Affymetrix Mouse Tiling 2.0R D array
Data processing Bar files were created using Affymetrix Tiling SDK release2 (BPMAP = NCBIv35, Quantile normalization, Bandwidth = 250, Signal scale = log2).
 
Submission date May 28, 2008
Last update date May 28, 2008
Contact name Eisuke Nishida
E-mail(s) nishida@lif.kyoto-u.ac.jp
Phone +81-75-753-4230
Organization name Graduate School of Biostudies, Kyoto University
Department Department of Cell and Developmental Biology
Street address Kitashirakawa, Sakyo-ku
City Kyoto
ZIP/Postal code 606-8502
Country Japan
 
Platform ID GPL6447
Series (1)
GSE11576 RNA mapping and ChIP with tiling arrays in FGF-stimulated NIH3T3 cells

Supplementary file Size Download File type/resource
GSM291473_NuclearRNA_20min_D.CEL.gz 25.1 Mb (ftp)(http) CEL
GSM291473_NuclearRNA_20min_relative_to_0min_D.bar.gz 30.3 Mb (ftp)(http) BAR
Processed data provided as supplementary file

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