|
| Status |
Public on Apr 23, 2009 |
| Title |
Yeast_0.4mMH2O2_rep3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
0.4 mM H2O2
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
BY4741 yeast cells grown to OD600 0.6 and treated with 0.4 mM for 1 hour
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA from each sample was isolated via phenol extraction followed by mRNA purification [Poly(A)Purist, Ambion, Catalog # 1916].
|
| Label |
Cy3
|
| Label protocol |
Purified mRNA from the control experiments was labeled with dUTP incorporating either Cy3 or Cy5 dye (CyScribe First-Strand cDNA labeling kit, Amersham Biosciences).
|
| |
|
| Channel 2 |
| Source name |
Untreated
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
BY4741 yeast cells grown to OD600 0.6 and treated with sham dose for 1 hour
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA from each sample was isolated via phenol extraction followed by mRNA purification [Poly(A)Purist, Ambion, Catalog # 1916].
|
| Label |
Cy5
|
| Label protocol |
Purified mRNA from the control experiments was labeled with dUTP incorporating either Cy3 or Cy5 dye (CyScribe First-Strand cDNA labeling kit, Amersham Biosciences).
|
| |
|
| |
| Hybridization protocol |
Cy-3 and Cy-5 labeled samples were mixed with hybridization buffer (Agilent In Situ Hybridization Kit) and co-hybridized to the Yeast Oligo Microarray. Slides were hybridized for 17h at 60 degree Celcius in a rotating oven, and washed
|
| Scan protocol |
Arrays were scanned using a GenePix 4000A or PerkinElmer Scanarray Lite microarray scanner at 10.0 uM and quantified with the GenePix 6.0 software package.
|
| Description |
Yeast cells treated with 0.4 mM H2O2 compared to untreated cells
|
| Data processing |
Value is the log ratio of the foreground mean of the treated channel versus the foreground mean of the background channel
|
| |
|
| Submission date |
Aug 27, 2008 |
| Last update date |
Apr 23, 2009 |
| Contact name |
Ryan Kelley |
| Organization name |
UCSD
|
| Department |
Bioinformatics
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0412 |
| Country |
USA |
| |
|
| Platform ID |
GPL2883 |
| Series (1) |
| GSE12602 |
Adaptation to hydrogen peroxide |
|
