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Series GSE105266 Query DataSets for GSE105266
Status Public on Jan 25, 2019
Title Distinct vascular genomic effects of proton and gamma radiation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We performed comparative RNA sequencing of the early (4 hrs) dose response (0.5 – 200 cGy whole body dose, 10 dose levels) of the mouse aorta to proton and gamma radiation. Total-body proton radiation of conscious animals was performed using a proton beam produced by a cyclotron system, while total-body gamma radiation of animals was performed using a Caesium-137 gamma source. A trend analysis identified genes that showed a dose response, using data permutation to estimate a false discovery rate (q-value) for each gene. We identified 29 and 194 genes (q-value ≤ 0.1) that were upregulated with increasing doses of proton and gamma radiation, respectively. No genes were down-regulated. While fewer genes were dose-responsive to proton radiation, the magnitude of the effect was greater than with gamma radiation. These highly responsive genes were enriched for pathways involved in the response to DNA damage, apoptosis, cellular stress and inflammation (p < 0.01). Gamma radiation responsive genes included the same pathways, but extended to genes in vasculature specific pathways. Genes responsive to both radiation types (19 genes at q-value ≤ 0.1) showed almost perfectly superimposable dose-response relationships. We observed the same superimposable dose response relationship of gamma and proton radiations in a subset of genes validated by quantitative PCR not only in the aorta but also in liver, lung, heart and kidney. Despite a relative similar relative biological effectiveness of protons and gamma photons and the activation of canonical radiation response pathways by both radiation types, we detected marked differences in the genomic response. It seems plausible that these genomic differences translate into differences in the biological processes leading to cardiovascular pathologies.
Overall design RNA-Seq 20 samples, mouse aorta. 10 mice were treated with ten different centigrays of gamma radiation and 10 mice were treated with ten different centigrays of high energy protons (0 cGy, 5 cGy, 10 cGy, 25 cGy, 50 cGy, 75 cGy, 100 cGy, 125 cGy, 150 cGy, 200 cGy). One sample per dose.
Contributor(s) Ricciotti E, Sarantopoulou D, Grant GR, Sanzari J, Krigsfeld G, Ahmad A, Kennedy A, Grosser T
Citation(s) 30742630
Submission date Oct 19, 2017
Last update date May 15, 2019
Contact name Gregory Robert Grant
Phone 215-573-3736
Organization name University of Pennsylvania
Department Genetics
Lab ITMAT Bioinformatics
Street address 3400 Civic Center Blvd.
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (20)
GSM2825341 Proton0.S1
GSM2825342 Proton5.S2
GSM2825343 Proton10.S3
BioProject PRJNA415173
SRA SRP120602

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
GSE105266_master_list_gene_counts_MIN.sense.Gamma_Proton_radiation.txt.gz 885.6 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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