|
| Status |
Public on Feb 15, 2021 |
| Title |
W303_rad53K227A_Exp1 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
W303_rad53K227A_Exp1_G1
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: JPY001
genotype: rad53K227A
time point: G1 control
molecule subtype: labeled ssDNA
|
| Treatment protocol |
Alpha factor was used at 3 micromolar and hydroxyurea was used at 200 mM. At the time of sampling, cells were treated with 0.1% sodium azide.
|
| Growth protocol |
Yeast cells were grown to approx. 5x10E6 cells/ml before alpha factor treatment in YEAST MINIMAL COMPLETE (YCOMP) medium.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Agarose plugs containing yeast cells for spheroplasting were prepared as described (Van Brabant et al., 2001 Mol Cell 7, 705-713).
|
| Label |
Cy5
|
| Label protocol |
In each experiment a G1 control sample and an S phase sample (released into S phase at 37C for 10, 15, 20 and 25 min) were paired and the DNA cohybridized to Agilent G4493A Yeast Whole Genome ChIP-on-Chip 4x44k microarrays.
|
| |
|
| Channel 2 |
| Source name |
W303_rad53K227A_Exp1_HU
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: JPY001
genotype: rad53K227A
time point: 1 h after release from G1 to 200 mM HU
molecule subtype: labeled ssDNA
|
| Treatment protocol |
Alpha factor was used at 3 micromolar and hydroxyurea was used at 200 mM. At the time of sampling, cells were treated with 0.1% sodium azide.
|
| Growth protocol |
Yeast cells were grown to approx. 5x10E6 cells/ml before alpha factor treatment in YEAST MINIMAL COMPLETE (YCOMP) medium.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Agarose plugs containing yeast cells for spheroplasting were prepared as described (Van Brabant et al., 2001 Mol Cell 7, 705-713).
|
| Label |
Cy3
|
| Label protocol |
In each experiment a G1 control sample and an S phase sample (released into S phase at 37C for 10, 15, 20 and 25 min) were paired and the DNA cohybridized to Agilent G4493A Yeast Whole Genome ChIP-on-Chip 4x44k microarrays.
|
| |
|
| |
| Hybridization protocol |
Scanned on an Agilent G2565B scanner.
|
| Scan protocol |
Images were quantified using Agilent Feature Extraction Software (version A.8.5.1.1).
|
| Data processing |
Agilent Feature Extraction Software (v 9.5.1) was used for background subtraction and LOWESS normalization. Chromosome coordinates (kb) for each probe were extracted.
|
| |
|
| Submission date |
Feb 14, 2021 |
| Last update date |
Feb 15, 2021 |
| Contact name |
Wenyi Feng |
| E-mail(s) |
[email protected]
|
| Phone |
3154648701
|
| Organization name |
SUNY Upstate Medical University
|
| Department |
Biochemistry and Molecular Biology
|
| Lab |
Wenyi Feng
|
| Street address |
750 East Adams Street
|
| City |
Syracuse |
| State/province |
NY |
| ZIP/Postal code |
13210 |
| Country |
USA |
| |
|
| Platform ID |
GPL10930 |
| Series (1) |
| GSE166733 |
Exceptional origin activation revealed by comparative analysis in two laboratory yeast strains |
|
