|
Status |
Public on Jul 01, 2008 |
Title |
HHO1_delta_25_degrees_vs_Wild_type_25_degrees |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
HHO1 delta grown at 25 degrees C.
|
Organism |
Saccharomyces cerevisiae |
Characteristics |
Euroscarf strain Y02125 (Mat alpha, his3 delta 1, leu2 delta 0, met15 delta 0, ura3 delta 0, YPL127C::kanMx4)
|
Growth protocol |
Cells were grown at 25 degrees C in YPAD medium to 0D600 0.5 with agitation.
|
Extracted molecule |
total RNA |
Extraction protocol |
Hot phenol
|
Label |
Cy3
|
Label protocol |
Total RNA was amplified and fluorescently labeled using the Agilent Technologies Low Input Linear Amplification Kit (part number 5184-3523) following the protocol described in the kit manual.
|
|
|
Channel 2 |
Source name |
Wild type grown at 25 degrees C.
|
Organism |
Saccharomyces cerevisiae |
Characteristics |
Euroscarf strain BY4741 (Mat alpha, his3 delta 1, leu2 delta 0, met15 delta 0, ura3 delta 0)
|
Growth protocol |
Cells were grown at 25 degrees C in YPAD medium to 0D600 0.5 with agitation.
|
Extracted molecule |
total RNA |
Extraction protocol |
Hot phenol
|
Label |
Cy5
|
Label protocol |
Total RNA was amplified and fluorescently labeled using the Agilent Technologies Low Input Linear Amplification Kit (part number 5184-3523) following the protocol described in the kit manual.
|
|
|
|
Hybridization protocol |
For each hybridization, 750 ng of cyanine 3- and 750 ng of cyanine 5-labeled cRNA were fragmented and hybridized to an Agilent Technologies Yeast (V2) Gene Expression Microarray (part number G4140B), using the Agilent Gene Expression hybridization kit (part number 5188-5242) as described in the manual.
|
Scan protocol |
All microarrays were scanned using Agilent's dual laser DNA microarray scanner G2505B. The data were then extracted from images by using Feature Extraction 9.1 software (Agilent Technologies).
|
Description |
Yeast were grown at 25 degrees C.
|
Data processing |
The R 2.4 software and the LIMMA package from the Bioconductor project (http://www.bioconductor.org ) were used to normalize the microarray data using VSN normalization. VALUES presented as log 2 ratio (mu25/wt25).
|
|
|
Submission date |
Sep 17, 2007 |
Last update date |
Aug 14, 2011 |
Contact name |
Don Jay Katcoff |
E-mail(s) |
katcoff@mail.biu.ac.il
|
Phone |
+972-3-531-8248
|
Fax |
+972-3-738-4097
|
Organization name |
Bar Ilan University
|
Department |
Life Sciences
|
Street address |
Ramat Gan
|
City |
Ramat Gan |
ZIP/Postal code |
52900 |
Country |
Israel |
|
|
Platform ID |
GPL2883 |
Series (1) |
GSE9095 |
Yeast linker histone HHO1p effect on transcription before and after heat shock |
|