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Series GSE19831 Query DataSets for GSE19831
Status Public on Oct 31, 2011
Title Growing pains: natural stress response during growth of B. subtilis (high density time-resolved transcriptome analysis)
Organism Bacillus subtilis
Experiment type Expression profiling by array
Summary 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
Overall design 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).
Contributor(s) Blom E, Ridder AN, Lulko A, Roerdink JB, Kuipers OP
Citation(s) 22087258
Submission date Jan 11, 2010
Last update date Mar 21, 2012
Contact name EJ Blom
Organization name University of Groningen
Department Molecular Genetics
Street address Kerklaan 30
City Haren
ZIP/Postal code 9751 NN
Country Netherlands
Platforms (1)
GPL6031 Bacillus subtilis 168 4K Oligo Array
Samples (118)
GSM495251 timepoint 1 vs timepoint 2 #1
GSM495252 timepoint 1 vs timepoint 2 #2
GSM495253 timepoint 2 vs timepoint 1 #1
BioProject PRJNA122167

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE19831_RAW.tar 50.7 Mb (http)(custom) TAR (of TXT)
GSE19831_TimepointProcessedData.txt.gz 953.5 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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