|
| Status |
Public on Jun 18, 2009 |
| Title |
DAMC233 array |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
DAMC233 chromosomal DNA labeled with Cy5
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: DAMC233
ploidy: diploid
recombination: illegitimate
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was harvested by standard protocol: Cells were treated with zymolyase to obtain spheroblasts. SDS was used to disrupt the cell membrane. Potassium acetate was used to precipitate protein and lipids. DNA was precipitated with isopropanol. RNAse A was used to degrade RNA.
|
| Label |
Cy5
|
| Label protocol |
Direct incorporation with klenow polymerase and random priming
|
| |
|
| Channel 2 |
| Source name |
MS71 chromosomal DNA labeled with Cy3
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: MS71
isogenicity: isogenic to the strain in Channel 1
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was harvested by standard protocol: Cells were treated with zymolyase to obtain spheroblasts. SDS was used to disrupt the cell membrane. Potassium acetate was used to precipitate protein and lipids. DNA was precipitated with isopropanol. RNAse A was used to degrade RNA.
|
| Label |
Cy3
|
| Label protocol |
Direct incorporation with klenow polymerase and random priming
|
| |
|
| |
| Hybridization protocol |
Described in Lemoine, F. et al. Cell, Vol. 120, 587-598 (2005).
|
| Scan protocol |
Array scanned in Genepix 4000b scanner.
|
| Description |
DAMC233 is an illegitimate diploid from a mating between an mre11-H125N mutant version of the GAL-POL1 strain described in Lemoine, F. et al. Cell, Vol. 120, 587-598 (2005) and the test mater 1225alpha (also described in Lemoine et al.). Genomic DNA from DAMC233 was competitively hybridized with genomic DNA from the isogenic reference strain MS71. This experiment allows the determination of chromosomal rearrangements in DAMC233.
|
| Data processing |
The log2 R/G ratios for all probes in the array 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 |
Jun 06, 2009 |
| Last update date |
Jun 17, 2009 |
| Contact name |
Anne Casper |
| E-mail(s) |
[email protected]
|
| Phone |
(919) 684-5891
|
| Organization name |
Duke University
|
| Department |
Department of Molecular Genetics and Microbiology
|
| Lab |
Laboratory of T. Petes
|
| Street address |
381 CARL Building, Research Drive, Box 3054
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platform ID |
GPL4414 |
| Series (1) |
| GSE16502 |
Analysis of genome rearrangements in S. cerevisiae strains with low levels of DNA polymerase alpha |
|
