E-MEXP-549 - Transcription profiling by array of irradiated human MOLT4 cells
Released on 1 March 2006, last updated on 6 August 2014
The purpose of the experiment was to generate a time course of gene expression following irradiation. The goal was then to model this data to extract hidden variables - chiefly, the activity profiles of the p53 transcription factor. Using this information the aim was to predict which transcripts changed by IR were targets of p53. Cells in log phase (1 x 106 ml-1) were ?-irradiated with 5 Gy at room temperature (RT) at a dose rate of 2.45 Gy per minute with a 137Cs ?-irradiator. Cells were harvested at 0, 2, 4, 6, 8, 10 and 12 hours, and RNA and protein were extracted (Trizol, Invitrogen). Affymetrix U133A arrays were hybridized as standard (www.affymetrix.co.uk). Array quality was determined using R and GCOS .rpt file values. The time course was replicated three times from independent cell preparations.
transcription profiling by array, stimulus or stress, time series
mike j hubank <email@example.com>, Daniel Brewer, Daniela Tomescu, Jaroslav Stark, Martino Barenco, Michael Hubank, Robin Callard
Ranked Prediction of p53 Targets Using Hidden Variable Dynamic Modelling (HVDM). Martino Barenco; Daniela Tomescu; Daniel Brewer; Robin Callard; Jaroslav Stark; Michael Hubank. , Europe PMC 16584535