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Title: Growing pains: natural stress response during growth of B. subtilis (high density time-resolved transcriptome analysis)      
dateReleased:
10-31-2011
description:
We have determined the time-resolved transcriptome of the model gram-positive organism B. subtilis during growth on rich medium. DNA microarrays were used to monitor gene transcription in 10-minute intervals at 40 consecutive timepoints. From the growth curve and a PCA analysis of all gene expression levels, we identified 4 distinct growth phases: a lag phase, an exponential growth phase, and very clearly separated early and late stationary growth phases For each time point, labeled cDNA was hybridized to a microarray slide together with labeled cDNA from the previous timepoint. In addition, the same DNA was used in a dye swap hybridization with the labeled cDNA from the subsequent timepoint. Lastly, labeled cDNA from each timepoint was hybridized with labeled cDNA from 30 mins later (e.g., 1 vs 4, 2 vs 5 etc.). The three slides resulted in six measurements per gene, since each slide contains two duplicate spots for all genes. Duplicate spots on the same array were analyzed separately, for a total of 118 Samples from the 56 hybridizations. Therefore, the same raw data file is associated with the '#1' and '#2' sample of a given comparison (eg. GSM495251 and GSM495252).
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-19831
refinement:
raw
alternateIdentifiers:
19831
keywords:
functional genomics
dateModified:
05-02-2014
availability:
available
types:
gene expression
name:
Bacillus subtilis
ID:
A-GEOD-6031
name:
Bacillus subtilis 168 4K Oligo Array
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19831/E-GEOD-19831.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-19831/E-GEOD-19831.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19831
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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