|
| Status |
Public on Jan 23, 2014 |
| Title |
RNA_dcr1_2 |
| Sample type |
RNA |
| |
|
| Source name |
RNA from dcr1Δ S. pombe, actinomycin D
|
| Organism |
Schizosaccharomyces pombe 972h- |
| Characteristics |
genotype/variation: dcr1Δ
|
| Treatment protocol |
Liquid yeast cultures were grown in YES media at 30°C until mid-logarithmic phase.
|
| Growth protocol |
Yeast cultures were grown in YES media at 30°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by phenol:chloroform following mechanical cell disruption. RNA was precipitated by ethanol, resuspended in water, and the integrity was assessed using Bioanalizer.
|
| Label |
biotin
|
| Label protocol |
RNA was treated according to the Affymetrix total RNA labeling protocol (www.affymetrix.com).
|
| |
|
| Hybridization protocol |
Hybridised to Affymetrix GeneChip S. pombe Tiling 1.0FR at the Affymetrix Core Facility at Novum (apt.bea.ki.se) according to standard Affymetrix protocols.
|
| Scan protocol |
Scanned at the Affymetrix Core Facility at Novum (apt.bea.ki.se) according to standard Affymetrix protocols.
|
| Description |
Total RNA from dcr1Δ cells, replicate 2
|
| Data processing |
CEL files were analysed using Affymetrix Tiling Array Software (TAS) software v.1.1, with scaling and quantile normalisation. Strand specific gene expression values were calculated using Podbat (Sadeghi et al, 2011)
wt.bar; dcr1_vs_wt_f_signal.bar; dcr1_vs_wt_r_signal.bar; rdp1_vs_wt_f_signal.bar; rdp1_vs_wt_r_signal.bar
BAR files of strand specific gene expression values; log2 of mutant to wt ratio
|
| |
|
| Submission date |
Jan 17, 2014 |
| Last update date |
Jan 23, 2014 |
| Contact name |
Agata Smialowska |
| Organization name |
Karolinska Institute
|
| Department |
Biosciences and Nutrition
|
| Street address |
Halsovagen 7
|
| City |
Huddinge |
| ZIP/Postal code |
141 83 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL7715 |
| Series (2) |
| GSE54190 |
RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe [Affymetrix] |
| GSE54195 |
RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe |
|
