|
| Status |
Public on Apr 03, 2014 |
| Title |
yeast-eco1-Jun2011-1 |
| Sample type |
RNA |
| |
|
| Source name |
yeast eco1 mutant
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain_id: SG156
genotype/variation: eco1 mutant
replicate: 1
experiment_date: Jun2011
|
| Treatment protocol |
Cells growing in exponential phase in YPD+CSM were pelleted by centrifugation.
|
| Growth protocol |
Cultures were innoculated from fresh overnights and grown at 30C in YPD+CSM to an OD as indicated.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the hot acid phenol method.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared from 300 ng Total RNA using MessageAmp III aRNA Kit from Ambion.
|
| |
|
| Hybridization protocol |
Following fragmentation, 5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Yeast Genome 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
eco1.1
|
| Data processing |
The Affymetrix Yeast Genome 2.0 array contains probes designed for both S. pombe and S. cerevisiae. Data from the arrays was filtered to exclude probes annotated to S. pombe, and retain those annotated to S. cerevisiae genes. Array intensities were processed using the RMA algorithm in the affy library (version affy_1.36.1) from bioconductor in R version 2.15.2.
|
| |
|
| Submission date |
Feb 06, 2014 |
| Last update date |
Apr 03, 2014 |
| Contact name |
Chris W Seidel |
| E-mail(s) |
[email protected]
|
| Phone |
816 926 9054
|
| Organization name |
Stowers Institute
|
| Department |
Genomics
|
| Lab |
Seidel
|
| Street address |
1000 E 50th St
|
| City |
Kansas City |
| State/province |
MO |
| ZIP/Postal code |
64110 |
| Country |
USA |
| |
|
| Platform ID |
GPL2529 |
| Series (2) |
| GSE54741 |
Microarray analysis comparing yeast Eco1 mutant W216G to mutants of FOB1 and RAD61 |
| GSE54743 |
The cohesin acetyltransferase Eco1 coordinates rDNA replication and transcription |
|
