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Sample GSM367226 Query DataSets for GSM367226
Status Public on Apr 01, 2009
Title hybrid at rich media (SC) repeat #3 Cy5
Sample type RNA
 
Source name S. cerevisiae BY4741 X S. paradoxus CBS432 (ho::kanMX4/ho::nat1 MATa/MATα)
Organism Saccharomyces cerevisiae x Saccharomyces paradoxus
Characteristics strain: S. cerevisiae BY4741 X S. paradoxus CBS432
Growth protocol Synthetic Complete (SC) medium 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 Cy5
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
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 9.48677
2_1_2678 10.1012
1_1_2836 10.962
2_1_2836 11.455
1_1_2587 10.7406
2_1_2587 11.1466
1_1_2077 8.85862
2_1_2077 8.923
1_2_906 7.9669
2_2_906 6.8505
1_2_1164 7.02
2_2_1164 6.9761
1_2_1932 7.6144
2_2_1932 7.6166
1_2_1404 7.8084
2_2_1404 5.9678
1_6_545 14.3805
2_6_545 13.8878
1_6_375 12.2378
2_6_375 13.0228

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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