Project description:We expressed the man-made protein DX in E. coli cells over the course of 4 hours and examined effects on global gene expression. We analyzed the change in RNA expression profiles of E. coli cells expressing the synthetic protein DX every half-hour over a four hour experiment. These samples were compared to un-induced control cells. Each sample represents a different time point with the 647nm channel being the DX-expressing samples and the 555nm chanel being the un-induced controls. Controls contained the DX cassette in the pBAD18 vector and were treated identically to the experimental cells, except the arabinose inducer was omitted from the growth media. The 2.5 hour time point is omitted because the control cDNA failed to label properly. No dye swaps or repeats were performed because: a) we were examining trends over time and any anomalous or faulty spot would be excluded during analysis if it were not part of a general trend, and b) Microarray data is not being used to draw conclusions, but rather to draw a picture of what was changing in the cell and open up avenues of exploration.
Project description:Gene-expression measurements were made over a 24 h time course as fermentative steady state E. coli cells were subjected to a shift to TMAO respiration.
Project description:DNA microarrays were used to compare the E. coli gene expression response to soluble and insoluble recombinant protein production. The study objective was to characterize the dynamic transcriptional changes that occur as insoluble recombinant protein is produced Recombinant cultures producing VP1GFP and GFPCAT in minimal medium (MM) cultures and VP1GFP in ethanol-treated cultures were analyzed. A total of 15 samples were collected. Samples were collected at 5, 20, 40, and 60 minutes post-induction for all induced MM cultures and at 60 minutes post-induction for the induced ethanol-treated cultures. Samples were collected at time 0 and 60 minutes for the uninduced MM and uninduced ethanol-treated cultures. Time 0 of the ethanol-treated VP1GFP cultures consisted of six biological replicates, while the remaining 14 samples were conducted in biological replicates. All biological replicates represent expression data from three independent hybridizations.
Project description:Chondrogenic differentiation of hMSC has been investigated by this study using different growth conditions including control (INC), TGFβ1 (T), TGFβ1 + BMP2 (TB), TGFβ1 + GDF5 (TG). For each condition triplicate time course expression measurements were performed for 10 different time points. Osteogenic differentiation of hMSC has been investigated by this study using different growth conditions including control (MD), dexamethasone (DX), dexamethasone + BMP2 (DB), dexamethasone + VitaminD3 (DV). For each condition triplicate time course expression measurements were performed for 10 different time points. Adipogenic differentiation of hMSC has been investigated by this study using different growth conditions including proliferation medium (PR), dexamethasone + IBMX + rosiglitazone (AD), dexamethasone (DX), dexamethasone + BMP2 (OS). For each condition triplicate time course expression measurements were performed for 10 different time points.
