|
| Status |
Public on Apr 01, 2009 |
| Title |
S.cerevisiae and S.paradoxus with TSA repeat #2 Cy5 |
| Sample type |
RNA |
| |
|
| Source name |
S. cerevisiae (BY4741 ho::kanMX4 MATa), S. paradoxus (CBS432 ho::nat1 MATα)
|
| Organisms |
Saccharomyces cerevisiae; Saccharomyces paradoxus |
| Characteristics |
strain: S. cerevisiae (BY4741), S. paradoxus (CBS432)
|
| Growth protocol |
RPD3 inhibition (SC with 30µM trichostatin A)
All samples were collected at log-phase growth. Starters were grown over night, dluted to OD(600)=0.1 in 10ml medium and harvested ~5 hours after dilution when OD(600)=~0.5
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted using MasterPure™ Yeast RNA purification Kit (EPICENTRE).
|
| Label |
Cy5
|
| Label protocol |
Agilent Low RNA Input Amplificarion Kit (LRIAK) plus, two color p/n 5188-5340
|
| |
|
| Hybridization protocol |
Agilent Gene Expression Hybridization Kit p/n 5188-5242
|
| Scan protocol |
Arrays were scanned using Agilent Microarray Scanner (p/n G2565BA) with a 5 micron resolution and photomultiplier tube (PMT) set to 100 and then rescanned with PMT=10. The images analyzed were from the PMT=100 unless data has reached saturation. The raw images were analyzed and quantified using Spotreader software (Niles scientific).
|
| Description |
Comparative analysis of gene expression in two yeast species and their interspecific hybrid
|
| Data processing |
Raw hybridization intensities were background subtracted and log2-transformed. Results of different samples from the same condition were converted into the same distribution using percentile normalization. Probes were then sorted into 10 bins of similar %GC and the log-intensities of each bin were renormalized to the mean and Std of all probes. Finally, the normalized expression was averaged over the technical repeats of each probe (each probe was placed at 3-4 different positions on the array).
|
| |
|
| Submission date |
Feb 04, 2009 |
| Last update date |
Feb 04, 2009 |
| Contact name |
Itay Tirosh |
| E-mail(s) |
itay.tirosh@weizmann.ac.il
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Molecular genetics
|
| Lab |
Naama Barkai
|
| Street address |
herzl
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
|
| Platform ID |
GPL8157 |
| Series (1) |
| GSE14708 |
Comparative analysis of gene expression in two yeast species and their interspecific hybrid |
|
