|
| Status |
Public on Oct 11, 2012 |
| Title |
RNA_wt_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
RNA from wt S. pombe
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
mutant: Hu303 (wildtype)
|
| Growth protocol |
Liquid cultures were grown in YES media. Temperature sensitive strains were grown at the permissive temperature (25 °C) either for ~30 h or for ~24 h followed by 6 h at the nonpermissive temperature (34 °C) before harvesting. All other strains were grown at 30 °C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from mid-logarithmic phase cells using the hot-phenol method. Briefly, cells were harvested by centrifugation at RT, resuspended in TES (10 mM TrisHCl pH7.5, 10 mM EDTA and 0.5% SDS) and transferred to preheated acid phenol (65 °C). After a 45 min shaking incubation at 65 °C, RNA was isolated by phenol-chloroform extraction.
|
| Label |
biotin
|
| Label protocol |
RNA was treated according to the Affymetrix total RNA labelling protocol (http://www.affymetrix.com).
|
| |
|
| Hybridization protocol |
Hybridised to Affymetrix GeneChip S. pombe Tiling 1.0FR Affymetrix core facility at Novum (http://apt.bea.ki.se) according to standard Affymetrix protocols.
|
| Scan protocol |
Scanned at the Affymetrix core facility at Novum (http://apt.bea.ki.se) according to standard Affymetrix protocols.
|
| Description |
RNA from wt S. pombe; replicate 2
|
| Data processing |
CEL.files were analysed in R (http://www.r-project.org) using the Bioconductor (http://www. bioconductor.org) packages “affy”, “affxparser” and “preprocessCore” with standard parameters.
|
| |
|
| Submission date |
Oct 10, 2012 |
| Last update date |
Oct 11, 2012 |
| Contact name |
Karl Ekwall |
| E-mail(s) |
karl.ekwall@ki.se
|
| Phone |
+46 8 6089133
|
| Organization name |
Karolinska Inst
|
| Street address |
Alfred Nobels Alle 7
|
| City |
Stockholm |
| ZIP/Postal code |
S-141 89 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL7715 |
| Series (1) |
| GSE41024 |
CHD1 remodelers space nucleosomes in vitro and link regular arrays to 5’ ends of genes in S. Pombe |
|
