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Title: Global gene expression analysis of Bacillus cereus to proanthocyanidin exposure      
dateReleased:
05-12-2015
description:
B. cereus RNA isolation were taken at OD 0.5 just before addition of 0.02 mg/mL EEC, and at 30 min of exposure. Water was added instead of EEC for control. Total RNA was isolated and we performed DNA microarray for genome-wide transcriptional analysis of B. cereus ATCC 14579 in the presence or absence of EEC. The microarray used in this study was custom-made B. cereus ATCC 14579 developed by Agilent Technologies (). The B. cereus microarray design was based on the predicted chromosomal open reading frames (NCBI Accession No. AE016877). It targets the 5234 annotated CDS, three non-overlapping probes were designed, low-quality probes were eliminated, and finally 15242 could be spotted. Microarray data was normalized to 75th percentile and the difference was found to be significant by unpaired T-test (P = 0.05). Next, ratio changes of 2-fold (for up-regulated genes in the EEC stress condition) and 0.5-fold (for down-regulated genes in the EEC stress condition) were regarded as biologically significant. 596 were up-regulated and 495 were down-regulated. Bacillus cereus was selected at 0, 30 min exposure for RNA extraction and hybridization on Agilent microarrays.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-68767
refinement:
raw
alternateIdentifiers:
68767
keywords:
functional genomics
dateModified:
05-22-2015
availability:
available
types:
gene expression
name:
Bacillus cereus
ID:
A-GEOD-20186
name:
Agilent-034939 Bacillus_cereus_ATCC14579 [Probe Name Version]
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-68767/E-GEOD-68767.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-68767/E-GEOD-68767.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=GSE68767
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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