|
| Status |
Public on Oct 15, 2010 |
| Title |
control |
| Sample type |
genomic |
| |
|
| Source name |
wild type BY4741 DNA
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: BY4741 wild type yeast
|
| Treatment protocol |
Standard chromatin/Mnase prep, digesting to mostly mononucleosomal DNA
|
| Growth protocol |
Wild type and matched mutant yeast were grown at 25 C, shifted for to 37 C and grown at 37 C for one hour before harvesting. Note third Rap1 samples (Tsui samples) were grown 2 hrs at 37 C.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Phenol/chloroform after proteinase K and cross link reversal; DNA was fragmented with DNase prior to labeling
|
| Label |
biotin
|
| Label protocol |
Labeled with biotinylated ddATP using terminal deoxynucleotidyl transferase
|
| |
|
| Hybridization protocol |
manufacturer's recommendation
|
| Scan protocol |
Affy recommendation
|
| Data processing |
The data was analyzed using TAS v1.1.02, and normalized using built-in quantile normalization and probe-level analysis with both perfect match and mismatch (PM/MM) probes and run with a bandwidth of 30. Text versions of the processed data (BAR) files are also provided on the Series record.
Three Abf1 ts against wild type, and three Rap1 against WT; 2-sided t-test for pvalues
|
| |
|
| Submission date |
Jun 23, 2010 |
| Last update date |
Sep 07, 2010 |
| Contact name |
Randall Heywood Morse |
| E-mail(s) |
[email protected]
|
| Phone |
518 486-3116
|
| Fax |
518 474-3181
|
| URL |
http://www.wadsworth.org/resnres/bios/morse.htm
|
| Organization name |
Wadsworth Center
|
| Lab |
Developmental Genetics
|
| Street address |
|
| City |
Albany |
| State/province |
NY |
| ZIP/Postal code |
12201-2002 |
| Country |
USA |
| |
|
| Platform ID |
GPL7070 |
| Series (1) |
| GSE22514 |
Abf1 and Rap1 effect on nucleosome occupancy in yeast |
|
