|
| Status |
Public on Aug 11, 2006 |
| Title |
Yeast FAIRE_set3_1 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
genomic set3 KO in BY4741 background
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genomic set3 KO in BY4741 background
|
| Extracted molecule |
genomic DNA |
| Label |
Cy3
|
| Label protocol |
samples and references were amplified using a T7 RNA polymerase–based linear method (see Liu et al., 2003 BMC Genomics)
|
| |
|
| Channel 2 |
| Source name |
fixed set3 KO in BY4741 background
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
fixed set3 KO in BY4741 background
|
| Extracted molecule |
genomic DNA |
| Label |
Cy5
|
| Label protocol |
samples and references were amplified using a T7 RNA polymerase–based linear method (see Liu et al., 2003 BMC Genomics)
|
| |
|
| |
| Scan protocol |
Images were acquired using a GenePix 4000B scanner and Genepix software (Axon Instruments)
|
| Description |
FAIRE_set3_1
|
| Data processing |
Data were uploaded to the UNC Microarray Database and retrieved as the log2 normalized ratio of (median intensity of sample pixels / median intensity of reference pixels). Only spots with a regression correlation >0.6 (i.e. those comprised of pixels with consistent ratio values). Spots that either failed from PCR or that were flagged in Genepix were not downloaded. Data were then z-score transformed such that the mean of all spots became 0 and the standard deviation became 1.
|
| |
|
| Submission date |
Apr 25, 2006 |
| Last update date |
Aug 11, 2006 |
| Contact name |
Jason D Lieb |
| E-mail(s) |
jlieb@bio.unc.edu
|
| Phone |
919-842-3228
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Department of Biology
|
| Lab |
Jason Lieb
|
| Street address |
203 Fordham Hall
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-3280 |
| Country |
USA |
| |
|
| Platform ID |
GPL3700 |
| Series (2) |
| GSE4720 |
Yeast FAIRE_testing wild-type and mutant strains |
| GSE4736 |
Yeast FAIRE Study_Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters. |
|
