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Series GSE23899 Query DataSets for GSE23899
Status Public on Aug 31, 2011
Title Bystander response to 0.5 Gy of alpha-particles in a human 3-dimensional skin model in 16h after exposure to ionizing radiation
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Ionizing radiation (IR) not only affects cells that are directly irradiated but also their non-irradiated neighbors, which show responses known as bystander effects. While bystander and direct responses have several common end points including apoptosis and micronucleation, chromatin remodeling and altered levels or activities of regulatory proteins, they can be quantitatively and qualitatively different. The majority of studies of radiation bystander effects have utilized 2-dimensional in vitro systems, but we have recently demonstrated such effects in EPI-200 (Mat-Tek, Ashland, MA), a 3-dimensional tissue model that precisely imitates the structure and function of human epidermis. Global gene expression is a powerful tool for uncovering both fundamental signaling processes and the mechanistic basis of cellular or physiological effects. By exposing only a thin strip across the center of the EPI-200 tissue, we have been able to measure global gene expression responses in bystander cells located at 0.125 and 0.625 um from the irradiation line, in 16h after irradiation. The data were analyzed using BRB-Array Tools (NIH), and further network analysis was performed with IPA (Ingenuity). Significantly responding genes were identified at the both distances. For instance, all sets demonstrated upregulation of two key enzymes of the lipid biosynthesis, UGT1 and PITPNB, and downregulation of proapoptotic proteins: BAX and ARHGEF5. In contrast, several proteins involved in transcriptional repression (CHD6, CHD8 andWRNIP1) were strongly upregulated suggesting a rearrangement in the gene transcription. These changes suggest an activation of bystander mechanisms different from those observed in 2-dimensional cell cultures.
 
Overall design Radiation induced gene expression in 3-dimensional tissue model, Epi-200, was measured in 16 hours after exposure to 0.5 Gy of alpha-particles. Three independent experiments were performed for the samples collected at different distances from the irradiation line (125-625 and 625-1125 um) using three tissue fragments per a data point.
 
Contributor(s) Amundson SA, Mezentsev AV
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Submission date Aug 31, 2010
Last update date Jan 23, 2019
Contact name Alexandre Mezentsev
E-mail(s) am2710@columbia.edu
Phone (212) 305-2166
Fax (212) 305-7391
Organization name Columbia University
Department Dermatology
Street address 630 west 168th Street, VC 15-204
City New York
State/province NY
ZIP/Postal code 10031
Country USA
 
Platforms (1)
GPL6480 Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name version)
Samples (16)
GSM589450 Tissue_model_Epi_200_0Gy_125_625_um_rep1
GSM589451 Tissue_model_Epi_200_0Gy_125_625_um_rep2
GSM589452 Tissue_model_Epi_200_0Gy_625_1125_um_rep1
Relations
BioProject PRJNA130551

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
GSE23899_RAW.tar 121.6 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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