|
| Status |
Public on Aug 12, 2009 |
| Title |
JAY270 x JAY309 biorep C |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
JAY270 cDNA labeled with Cy5, biological replicate C.
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: JAY270
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total yeast RNA was prepared according using hot acidic phenol protocol described in Ausubel et al (Current Protocols in Molecular Biology, Chapter 13, DOI: 10.1002/0471142727.mb1312s23).
|
| Label |
dUTP-Cy5
|
| Label protocol |
First strand cDNA was synthesized and labeled with dUTP-Cy5 using Invitrogen Superscript Direct Labeling kit according to manufacturer's instructions.
|
| |
|
| Channel 2 |
| Source name |
JAY309 cDNA labeled with Cy3, biological replicate C. JAY309 is isogenic to S288c.
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: JAY309
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total yeast RNA was prepared according using hot acidic phenol protocol described in Ausubel et al (Current Protocols in Molecular Biology, Chapter 13, DOI: 10.1002/0471142727.mb1312s23).
|
| Label |
dUTP-Cy3
|
| Label protocol |
First strand cDNA was synthesized and labeled with dUTP-Cy3 using Invitrogen Superscript Direct Labeling kit according to manufacturer's instructions.
|
| |
|
| |
| Hybridization protocol |
Equal amounts of Cy5 and Cy3-labeled cDNA (~2 ug each) were competitively hybridized to microarrays containing all S. cerevisiae ORFs and Intergenic regions. The hybridization and array washing protocol was the same as described in DeRisi et al, 1997, Science 278:680.
|
| Scan protocol |
Array scanned in Genepix 4000b scanner.
|
| Description |
Total RNA was extracted from a mid-log phase JAY270 culture in rich media (YPD, 30C).
Total RNA was extracted from a mid-log phase JAY309 culture in rich media (YPD, 30C).
|
| Data processing |
The log2 R/G ratio for all probes in the arrays were collapsed to a single value in the case of repeated probes and normalized according to the median value for the entire array.
|
| |
|
| Submission date |
Aug 10, 2009 |
| Last update date |
Aug 11, 2009 |
| Contact name |
Juan Lucas Argueso |
| E-mail(s) |
[email protected]
|
| Phone |
1-919-684-5814
|
| Organization name |
Duke University Medical Center
|
| Department |
Molecular Genetics and Microbiology
|
| Street address |
371 CARL Building, Box 3054
|
| City |
Durham |
| State/province |
SP |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platform ID |
GPL4414 |
| Series (1) |
| GSE17578 |
A Saccharomyces cerevisiae strain widely used in bioethanol production |
|
