|
| Status |
Public on Dec 21, 2006 |
| Title |
rpb1-N488D-N1 |
| Sample type |
RNA |
| |
|
| Source name |
rpb1-N488D; 30C-YPED; BY series strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
BY series strain of the Yeast Knock-Out collection. rpb1-N488D strain.
|
| Growth protocol |
Rich Media (YPED) at 30C with shaking. As described previously (Malagon F and Aguilera A. 2001. Yeast spt6-140 mutation, affecting chromatin and transcription, preferentially increases recombination in which Rad51p-mediated strand exchange is dispensable. Genetics. 158:597-611).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hot acid phenol extraction as described previously (Kohrer K and Domdey H. 1991. Preparation of high molecular weight RNA. Methods Enzymol. 194:398-405).
|
| Label |
bio-11-CTP and bio-16 UTP
|
| Label protocol |
As described previously: Nuwaysir EF, et all. 2002. Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res. 12:1749-55.
|
| |
|
| Hybridization protocol |
As described previously: Nuwaysir EF, et all. 2002. Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res. 12:1749-55.
|
| Description |
Total RNA from rpb1-N488D mutant strain growing at 30C in rich media in day A (N1).
Robust Multiarray Average (RMA) using quantile normalization (see: Bolstad B et all. 2003. A comparison of normalization methods for high density oligonucleotide array data based on bias and variance. Bioinformatics 19: 185-193) and gene calls generated using the RMA algorithm (Irizarry RA. et all. 2003. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics, 4:249-64).
|
| Data processing |
RMA (Robust Multichip Average) applied to seven samples of day A (N1)
|
| |
|
| Submission date |
Jun 21, 2005 |
| Last update date |
Dec 21, 2005 |
| Contact name |
Francisco Malagon |
| E-mail(s) |
[email protected]
|
| Phone |
+45-89422617
|
| Fax |
+45-86196500
|
| Organization name |
Aarhus University
|
| Department |
Department of Molecular Biology
|
| Street address |
C.F. Mollers Alle, Bldg. 130
|
| City |
Aarhus |
| ZIP/Postal code |
8000 AARHUS C. |
| Country |
Denmark |
| |
|
| Platform ID |
GPL2547 |
| Series (1) |
| GSE2831 |
RPB1 mutants sensitive to 6-AU |
|
