|
| Status |
Public on Aug 01, 2011 |
| Title |
Pol2 ChIP vs input in wild type at 37C |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
W303-1a, input
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: W303-1a
antibody: none
|
| Treatment protocol |
Cells were shifted to Galactose or 37C for 30 minutes or 1 hour depending upon experiment.
|
| Growth protocol |
Cells were grown to log phase in YPD at room temperature.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Done as in Hecht et al., Nature 1996.
|
| Label |
Cy5
|
| Label protocol |
Done as in Robyr and Grunstein, Methods 2003.
|
| |
|
| Channel 2 |
| Source name |
W303-1a, Pol2 ChIP
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: W303-1a
antibody: anti-Pol2 (Covance #8WG16)
|
| Treatment protocol |
Cells were shifted to Galactose or 37C for 30 minutes or 1 hour depending upon experiment.
|
| Growth protocol |
Cells were grown to log phase in YPD at room temperature.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Done as in Hecht et al., Nature 1996.
|
| Label |
Cy3
|
| Label protocol |
Done as in Robyr and Grunstein, Methods 2003.
|
| |
|
| |
| Hybridization protocol |
Done according to Agilent Yeast Tiling Array (G4491A) manufacturer's instructions.
|
| Scan protocol |
According to manufacturer's instructions.
|
| Description |
ChIP of Pol2 vs input DNA in wild type cells after growth to log phase at room temperature and then shift to 37C for 1 hour. Two replicates.
|
| Data processing |
Following scanning, features were extracted using Agilent Feature Extraction and normalized using Agilent ChIP Analytics using default settings except that dye swaps were done when appropriate.
Full processed data is available in the ChIP_Analytics tsv supplementary files. VALUE in the data table represents the normalized log ratio test/ref.
|
| |
|
| Submission date |
Jun 21, 2011 |
| Last update date |
Aug 01, 2011 |
| Contact name |
Adam S Sperling |
| E-mail(s) |
asperlin@ucla.edu
|
| Organization name |
University of California Los Angeles
|
| Department |
Biological Chemistry
|
| Lab |
Grunstein Lab
|
| Street address |
611 Charles E. Young Dr. East
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL4130 |
| Series (1) |
| GSE22626 |
Topoisomerase II binds nucleosome-free DNA and acts redundantly with Topoisomerase I to enhance recruitment of RNA Pol II in budding yeast |
|
