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Sample GSM559073 Query DataSets for GSM559073
Status Public on Oct 15, 2010
Title Rap1 ts
Sample type genomic
 
Source name Rap1 ts mononucleosomal DNA
Organism Saccharomyces cerevisiae
Characteristics strain: rap1-2 ts mutant
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
Description nucleosomal DNA
Rap1 ts mutant against genomic DNA
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 22, 2010
Last update date Sep 07, 2010
Contact name Randall Heywood Morse
E-mail(s) randall.morse@wadsworth.org
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 GPL7249
Series (1)
GSE22514 Abf1 and Rap1 effect on nucleosome occupancy in yeast

Supplementary file Size Download File type/resource
GSM559073_Rap1_ts-1.CEL.gz 28.7 Mb (ftp)(http) CEL
GSM559073_Rap1_ts-2.CEL.gz 23.3 Mb (ftp)(http) CEL
Processed data are available on Series record

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