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TranscriptomicsMicroarray for suspension cells of PA14 WT with and without NE (50 uM and 500 uM) for 7 h
It has been proposed that the gastro-intestinal tract environment containing high levels of neuroendocrine hormones is important for gut-derived P. aeruginosa infections. In this study, we report that the hormone norepinephrine increases P. aeruginosa PA14 growth, virulence factor production, invasi...
ORGANISM(S): Pseudomonas aeruginosa UCBPP-PA14 
2009-08-27 | E-GEOD-13326 | biostudies-arrayexpress
TranscriptomicsHuman epithelial cell response to bacterial signal indole
Indole is a bacterial signal secreted by pathogenic and commensal Escherichia coli in the stationary phase at high concentrations (~600 µM). Prior work from our lab has shown that indole decreases E. coli O157:H7 (EHEC) chemotaxis, motility, attachment to epithelial cells and biofilm formation. How...
ORGANISM(S): Homo sapiens 
2010-05-16 | E-GEOD-14379 | biostudies-arrayexpress
TranscriptomicsSalmonella Typhimurium LT2: Control versus naringenin
Salmonellosis is one of the leading health problems worldwide. With the rise of drug resistance strains it has become imperative to identify alternative strategies. Naringenin, a flavonone, is present predominantly in grapefruit. Previously we have demonstrated that naringenin is potent inhibitor of...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 
2011-05-05 | E-GEOD-21873 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of E.coli biofilms treated with 7-hydroxyindole and isatin
For the microarray experiments, 10 g glass wool (Corning Glass Works, Corning, N.Y.) were used to form biofilms (30) in 250 mL in 1 L Erlenmeyer shake flasks which were inoculated with overnight cultures diluted that were 1:100. For EHEC with 7-hydroxyindole and isatin, 1000 mM 7-hydroxyindole in 2...
ORGANISM(S): Escherichia coli 
2008-06-14 | E-GEOD-6195 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of E. coli K-12 mutants yceP, trpE, and tnaA biofilm cell 24 hr
Gene expression of (i) K-12 yceP biofilms upon addition of 600 µM indole in LB glu medium, (ii) K-12 biofilms due to the trpE mutation in LB glu medium, and (iii) K-12 biofilms due to the tnaA mutation in LB medium. Experiment Overall Design: Strains:E. coli K12 BW25113 delta yceP, trpE, tnaA and w...
ORGANISM(S): Escherichia coli 
2008-06-13 | E-GEOD-4562 | biostudies-arrayexpress
TranscriptomicsChanges in EHEC virulence on exposure to epithelial cell secreted factors
EHEC is a food-borne pathogen that colonizes human GI tract and leads to infection. To understand the process of colonization and to decipher if any factors secreted by intestinal epithelial cells help EHEC during the infection process, we studied expression of EHEC virulence gene expression when ex...
ORGANISM(S): Escherichia coli O157:H7 str. EDL933 
2012-10-04 | E-GEOD-22285 | biostudies-arrayexpress
MetabolomicsEnvironmental Chemical Diethylhexyl Phthalate Alters Intestinal Microbiota Community Structure and Metabolite Profile in Mice
Exposure to environmental chemicals during windows of development is a potentially contributing factor in gut microbiota dysbiosis, and linked to chronic diseases and developmental disorders. We used a community-level model of microbiota metabolism to investigate the effects of diethylhexyl phthalat...
2022-01-17 | MTBLS861 | MetaboLights
ModelsSingh2006_IL6_Signal_Transduction
The model reproduces Fig 2 , Fig3A and Fig 3B of the paper. The ODE for x1(gp180) and x3 (gp 130) is wrong and the authors have communicated to the curator that the species ought to have a constant value. There are a few other differences from the paper and these were made in consultation with the ...
2024-09-02 | BIOMD0000000151 | BioModels
UnknownLoss of AhR potentiates FoxM1 signaling to enhance self-renewal of colonic stem/progenitor cells
Not available
S-SCDT-EMBOJ-2019-104319 | biostudies-other
TranscriptomicsTranscription profiling of rat liver samples from individuals subjected to burn injury or cecal ligation and puncture
The experimental design included three biological replicates for each of the three conditions: Sham-Sham, Sham-CLP and burn-CLP. Liver samples were collected from the rats and the total RNA was analyzed on a Affymetrix RAE230A chip. No technical replicates were included in the study
ORGANISM(S): Rattus norvegicus 
2007-11-03 | E-GEOD-1781 | biostudies-arrayexpress
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