|
| Status |
Public on Mar 01, 2010 |
| Title |
Sc Gcn5-myc enrichment normal conditions |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
strain BQS1350 (ChIP fraction)
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
agent: no treatment
time: n/a
tag: myc
genotype: By4742 Gcn5-MYC13-KanMX6
antibody: monoclonal anti-c-Myc
|
| Treatment protocol |
untreated
|
| Growth protocol |
Yeast cells grow at 25°C in YPD medium to log phase.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Experimental procedure was essentially according to Johnsson ect, EMBO reports, 2009 (in press)
|
| Label |
biotin
|
| Label protocol |
Biotinylated genomic DNA were prepared according to the standard Affymetrix protocol: affymetrix chromatin immunoprecipitation assay protocol. 2005-2006
|
| |
|
| Channel 2 |
| Source name |
strain By4742 (wild type control)
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
agent: no treatment
genotype: MATα, his3-1, leu2-0, lys2-0, ura3-0
|
| Treatment protocol |
untreated
|
| Growth protocol |
Yeast cells grow at 25°C in YPD medium to log phase.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Experimental procedure was essentially according to Johnsson ect, EMBO reports, 2009 (in press)
|
| Label |
biotin
|
| Label protocol |
Biotinylated genomic DNA were prepared according to the standard Affymetrix protocol: affymetrix chromatin immunoprecipitation assay protocol. 2005-2006
|
| |
|
| |
| Hybridization protocol |
Fragmented genomic DNA was hybridized to Affymetrix GeneChip S. cerevisiae Tilling 1.0R according to Affymetrix chromatin immunoprecipitation assay protocol. 2005-2006
|
| Scan protocol |
According to affymetrix chromatin immunoprecipitation assay protocol. 2005-2006
|
| Description |
This file contains genome-wide signal intensity for Gcn5-myc enrichment under normal conditions in S. cerevisiae. Two experimental samples and two control samples are used for analysis. MAT (see data processing) was used for data processing with the band width setting at 250, max gap at 300 and min probe at 10.
|
| Data processing |
Model-based analysis of tilling-array (MAT) was used. Johnson WE etc. Model-based analysis of tiling-arrays for ChIP-chip. Proc. Natl. Acad. Sci. USA 103 (2006) 12457-12462.
MAT data processing with the band width setting at 250, max gap at 300 and min probe at 10.
|
| |
|
| Submission date |
Jun 09, 2009 |
| Last update date |
Jan 08, 2010 |
| Contact name |
Anthony Wright |
| E-mail(s) |
yongtao.xue.franzen@ki.se
|
| Organization name |
Karolinska Institute
|
| Lab |
Anthony Wright
|
| Street address |
Blickagången 6
|
| City |
Huddinge |
| ZIP/Postal code |
141 57 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL7250 |
| Series (2) |
| GSE16514 |
Genome-wide localization of Gcn5 under normal and stress conditions in S. cerevisiae and S. pombe |
| GSE16556 |
Role of Gcn5 in KCl stress adaptation in S. cerevisiae and S. pombe: transcriptional and genomic analyses |
|
