|
| Status |
Public on Jul 01, 2008 |
| Title |
NuclearRNA_60min_D |
| Sample type |
RNA |
| |
|
| Source name |
FGF 60 min
|
| Organism |
Mus musculus |
| Characteristics |
NIH3T3 cell
|
| Treatment protocol |
Serum starvation 36 h, 50 ng/ml FGF 60 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 60 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 |
|
