|
| Status |
Public on Nov 22, 2011 |
| Title |
TAP_med8_2 |
| Sample type |
genomic |
| |
|
| Source name |
Med8 ChIP DNA
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
antibody: TAP-med8
|
| Growth protocol |
Cells in YP + 2% glucose were collected in log phase
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Extraction was performed as previously described (zhu et al. 2006). For TAP-med8, we used IgG beads from GE healthcare as the normal ChIP-chip study.
|
| Label |
Biotin
|
| Label protocol |
DNA was labeled with biotin-N6-dATP using terminal transferase TdT (Roche, 400U/ul)
|
| |
|
| Hybridization protocol |
Hybridization was performed as affymetrix protocol. Samples were hybridized for 16 hr at 42C in a hybridization oven (GeneChip Hybridization Oven 640, Affymetrix)
|
| Scan protocol |
The washing and scanning protocol, provided by Affymetrix, was performed automatically on a fluidics station (GeneChip fluidics station 450, Affymetrix)
|
| Description |
TAP-med8 Chip repeat2
|
| Data processing |
We used affymetrix tiling array software (TAS) V1.1 to analyze our data. The raw cel data were imported into TAS as two analysis treatment group -- our IP sample and genomic background control. We use two side test, bandwidth i 150 . Probe match chosen was PM/MM(perfect match/mismatch). Finally, we analyzed the intensity to get the Bar or CHP format signal files.
|
| |
|
| Submission date |
Apr 14, 2011 |
| Last update date |
Nov 22, 2011 |
| Contact name |
Claes M Gustafsson |
| E-mail(s) |
claes.gustafsson@medkem.gu.se
|
| Organization name |
Gothenburg University
|
| Department |
Department of Medical biochemistry and cell biology
|
| Street address |
Medcinaregatan 9A
|
| City |
Gothenburg |
| ZIP/Postal code |
405 30 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL7250 |
| Series (1) |
| GSE28613 |
MEDIATOR subunit med8 binding in Saccharomyces cerevisiae |
|
