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Sample GSM1084773 Query DataSets for GSM1084773
Status Public on Aug 01, 2013
Title S.coelicolor germination_time 4.5 h_replicate 1
Sample type RNA
 
Channel 1
Source name S.coelicolor germination time 4.5 h
Organism Streptomyces coelicolor A3(2)
Characteristics strain: M145
Growth protocol Dormant spores germiantion was activated by mechanical disruption and 10min heat shock (50°C), than cultivated in rich AM liquid medium at 37°C. Samples collected at 30 min intervals.
Extracted molecule total RNA
Extraction protocol The cells were mechanicaly disrupted and total RNA was extracted using phenol-chlorophorm RNA extraction.
Label Cy3
Label protocol Bacterial RNA Amplification Protocol for Gene Expression by Oxoford Gene Technology
 
Channel 2
Source name proportional mixture of RNA samples from all time points
Organism Streptomyces coelicolor A3(2)
Characteristics strain: M145
Growth protocol Dormant spores germiantion was activated by mechanical disruption and 10min heat shock (50°C), than cultivated in rich AM liquid medium at 37°C. Samples collected at 30 min intervals.
Extracted molecule total RNA
Extraction protocol The cells were mechanicaly disrupted and total RNA was extracted using phenol-chlorophorm RNA extraction.
Label Cy5
Label protocol Bacterial RNA Amplification Protocol for Gene Expression by Oxoford Gene Technology
 
 
Hybridization protocol Bacterial RNA Amplification Protocol for Gene Expression by Oxoford Gene Technology
Scan protocol Scanned on an Agilent Technologies Scanner G2505C and images were quantified using Agilent Feature Extraction software.
Data processing For background subtraction and LOWESS normalization was used Agilent Feature Extraction software. The GeneSpring software was used to filter out signal intensities < 200.
 
Submission date Feb 20, 2013
Last update date Aug 01, 2013
Contact name Jiri Vohradsky
E-mail(s) vohr@biomed.cas.cz
Organization name Institute of Microbiology Czech Academy of Sciences
Lab Bioinformatics
Street address Videnska 1083
City Prague
ZIP/Postal code 14220
Country Czech Republic
 
Platform ID GPL16698
Series (1)
GSE44415 Expression time-series from Streptomyces coelicolor germination

Data table header descriptions
ID_REF
VALUE log2 (sample_Cy3 / reference_Cy5)

Data table
ID_REF VALUE
EXP_AL645882_446_1123_1_678_s_PSO-60-0401 -0.212764692
EXP_AL645882_446_1123_1_678_s_PSO-60-0481 -0.233543487
EXP_AL645882_446_1123_1_678_s_PSO-60-0161 -0.251785325
EXP_AL645882_1252_3813_1_2562_s_PSO-60-2501 -1.060715597
EXP_AL645882_1252_3813_1_2562_s_PSO-60-2381 -0.133529669
EXP_AL645882_1252_3813_1_2562_s_PSO-60-0261 -0.620271652
EXP_AL645882_3808_3874_1_67_s_PSO-60-0005 -0.526231908
EXP_AL645882_1252_3813_1_2562_s_PSO-60-0941 0.268782515
EXP_AL645882_3869_6220_1_2352_s_PSO-60-0001 -0.83296921
EXP_AL645882_3869_6220_1_2352_s_PSO-60-0841 -0.799987875
EXP_AL645882_3869_6220_1_2352_s_PSO-60-1921 -0.323197489
EXP_AL645882_3869_6220_1_2352_s_PSO-60-0281 -0.346857108
EXP_AL645882_3869_6220_1_2352_s_PSO-60-1521 -0.774662928
EXP_AL645882_3869_6220_1_2352_s_PSO-60-2121 -0.367831279
EXP_AL645882_3869_6220_1_2352_s_PSO-60-1061 -1.21883298
EXP_AL645882_3869_6220_1_2352_s_PSO-60-1661 -0.556418436
EXP_AL645882_3869_6220_1_2352_s_PSO-60-2281 -0.575447027
EXP_AL645882_6226_7173_1_948_s_PSO-60-0481 0.123995747
EXP_AL645882_6226_7173_1_948_s_PSO-60-0701 -0.284958877
EXP_AL645882_6226_7173_1_948_s_PSO-60-0041 -1.277363681

Total number of rows: 22400

Table truncated, full table size 1328 Kbytes.




Supplementary file Size Download File type/resource
GSM1084773_0390_CZR_20bit_251790510127_S01_GE2_107_Sep09_1_3.txt.gz 13.1 Mb (ftp)(http) TXT
Processed data included within Sample table
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