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Status |
Public on Dec 31, 2018 |
Title |
spt7-1180_rep3 |
Sample type |
RNA |
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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
|
|
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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.
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|
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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 |
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