|
| Status |
Public on Sep 16, 2008 |
| Title |
zip2 tetrad28, spore A, B, C, D |
| Sample type |
genomic |
| |
|
| Source name |
spore from a 4-spore viable tetrad originating from a Dzip2 S96 x YJM789 strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype: zip2::KAN
|
| Growth protocol |
Haploid strains were mated and zygotes were picked after 4 hrs and allowed to grow on YPAD plates for < 3 days before transferring to 2% potassium acetate sporulation plates at 30ºC. Tetrads were dissected after 3-5 days. Colonies were grown in 550 ml of YPAD for 59 hrs at 30ºC on a 300 rpm shaker.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was purified from 500 ml of overnight YPAD culture using a Qiagen genomic-tip 500/G as instructed by the Qiagen genomic DNA handbook with the modification of extending zymolyase and protease K digestion to 5 hour.
|
| Label |
biotin
|
| Label protocol |
55 μg of genomic DNA was digested to 50- to 500-bp fragments with Dnase I and end-labeled with bio-ddATP as previously described (Winzeler et al., 2003).
|
| |
|
| Hybridization protocol |
50 ug of fragmented DNA was hybridized for 56hs at 42ºC to Affymetrix S98 Yeast Expression arrays. Gene chips were washed and stained in an Affymetrix Fluidics Station 450.
|
| Scan protocol |
Gene chips were scanned using Affymetrix GeneChip Scanner GCS3000
|
| Description |
DNA genotyping data of progeny from a Dzip2 S96 x YJM789 hybrid strain
|
| Data processing |
The data were analyzed with GCOS 5.4 using Affymetrix default analysis settings and global scaling as normalization method to generate CEL files from DAT files. Allelescan software combined information from CEL files from each of the spores of one tetrad to generate a segregation file (_seg.txt) for that tetrad that genotyped the DNA for each spore as arising from either S96 or YJM789 parental origin.
|
| |
|
| Submission date |
Jul 18, 2008 |
| Last update date |
Aug 01, 2008 |
| Contact name |
Jennifer Fung |
| E-mail(s) |
jfung@biochem.ucsf.edu
|
| Phone |
415 514-4309
|
| Fax |
415 514-4145
|
| Organization name |
UCSF
|
| Department |
Biochemistry and Biophysics
|
| Lab |
Fung
|
| Street address |
S316 Genentech Hall, MC2200 600 16th St.
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
| |
|
| Platform ID |
GPL90 |
| Series (1) |
| GSE12170 |
Global Analysis of the Meiotic Crossover Landscape |
|
