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Sample GSM367228 Query DataSets for GSM367228
Status Public on Apr 01, 2009
Title S.cerevisiae and S.paradoxus at glycerol repeat #1 Cy3
Sample type RNA
 
Source name S. cerevisiae (BY4741 ho::kanMX4 MATa), S. paradoxus (CBS432 ho::nat1 MATα)
Organisms Saccharomyces cerevisiae; Saccharomyces paradoxus
Characteristics strain: S. cerevisiae (BY4741), S. paradoxus (CBS432)
Growth protocol glycerol (YPglycerol at 30°C)
All samples were collected at log-phase growth. Starters were grown over night, dluted to OD(600)=0.1 in 10ml medium and harvested ~5 hours after dilution when OD(600)=~0.5
Extracted molecule polyA RNA
Extraction protocol Total RNA was extracted using MasterPure™ Yeast RNA purification Kit (EPICENTRE).
Label Cy3
Label protocol Agilent Low RNA Input Amplificarion Kit (LRIAK) plus, two color p/n 5188-5340
 
Hybridization protocol Agilent Gene Expression Hybridization Kit p/n 5188-5242
Scan protocol Arrays were scanned using Agilent Microarray Scanner (p/n G2565BA) with a 5 micron resolution and photomultiplier tube (PMT) set to 100 and then rescanned with PMT=10. The images analyzed were from the PMT=100 unless data has reached saturation. The raw images were analyzed and quantified using Spotreader software (Niles scientific).
Description Comparative analysis of gene expression in two yeast species and their interspecific hybrid
the S.cerevisiae sample was diluted to OD(600)=0.2 and harvested after 8 hours due to very low growth rate
Data processing Raw hybridization intensities were background subtracted and log2-transformed. Results of different samples from the same condition were converted into the same distribution using percentile normalization. Probes were then sorted into 10 bins of similar %GC and the log-intensities of each bin were renormalized to the mean and Std of all probes. Finally, the normalized expression was averaged over the technical repeats of each probe (each probe was placed at 3-4 different positions on the array).
 
Submission date Feb 04, 2009
Last update date Feb 04, 2009
Contact name Itay Tirosh
E-mail(s) itay.tirosh@weizmann.ac.il
Organization name Weizmann Institute of Science
Department Molecular genetics
Lab Naama Barkai
Street address herzl
City Rehovot
ZIP/Postal code 76100
Country Israel
 
Platform ID GPL8157
Series (1)
GSE14708 Comparative analysis of gene expression in two yeast species and their interspecific hybrid

Data table header descriptions
ID_REF
VALUE Normalized log2 of hybridization intensity

Data table
ID_REF VALUE
1_1_2678 10.7884
2_1_2678 10.8917
1_1_2836 11.9153
2_1_2836 11.7401
1_1_2587 12.0609
2_1_2587 11.6245
1_1_2077 10.0206
2_1_2077 9.9594
1_2_906 8.1088
2_2_906 5.6478
1_2_1164 7.0711
2_2_1164 7.5167
1_2_1932 8.0117
2_2_1932 6.6762
1_2_1404 7.7786
2_2_1404 5.9207
1_6_545 13.5969
2_6_545 13.3706
1_6_375 10.72
2_6_375 12.9382

Total number of rows: 33648

Table truncated, full table size 609 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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