NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1608251 Query DataSets for GSM1608251
Status Public on Dec 31, 2018
Title spt7-1180_rep3
Sample type RNA
 
Source name spt7-1180_YPD o/n 25 ºC
Organism Saccharomyces cerevisiae
Characteristics strain: spt7-1180
Growth protocol yeast exponential-phase cultures grown in YPD at 25 ºC
Extracted molecule total RNA
Extraction protocol Total RNA was harvested from yeast exponential-phase cultures grown in YPD at 25 ºC by phenol:chloroform extraction. For reverse transcription (RT) 2 µg of total RNA were treated with DNase-I (Roche) and purified by phenol:chloroform extraction. RT was performed following standard procedures with random hexamers and M-MLV reverse transcriptase (Invitrogen).
Label biotin
Label protocol standard protocol for the Ambion® WT Expression kit of Affymetrix
 
Hybridization protocol standard protocol for the Ambion® WT Expression kit of Affymetrix
Scan protocol The tiling arrays were scanned using an Affymetrix Scanner according to manufacturer's instruction.
Data processing Microarray data of the raw .CEL images were analyzed using Tiling Analysis Software (TAS, Affymetrix) with the signal detection parameters set by default. The data For each strain, microarray analysis was conducted in triplicate; the values presented are the average of these three determinations. The signal of each mutant was normalized to the signal obtained for the WT using the “Two sample comparison analysis” option in TAS.
For the comparison of each mutant respect to the WT strain, two results files are obtained: the "mutant vs WT_R_signal" which corresponds to the signal for the Crick strand; and the "mutant vs WT_F_signal" which corresponds to the signal for the Watson strand of the DNA.
 
Submission date Feb 12, 2015
Last update date Dec 31, 2018
Contact name VARINIA GARCIA-MOLINERO
Organization name CENTRO DE INVESTIGACIÓN PRÍNCIPE FELIPE
Street address EDUARDO PRIMO YÚFERA, 3
City VALENCIA
ZIP/Postal code 46012
Country Spain
 
Platform ID GPL19774
Series (1)
GSE65883 Genome-wide association of Sus1 with RNAPII and tRNA genes depends on the distinctive SAGA subunits Spt8 and Spt7

Supplementary file Size Download File type/resource
GSM1608251_spt7-1180_3.CEL.gz 26.7 Mb (ftp)(http) CEL
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap