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Series GSE45609 Query DataSets for GSE45609
Status Public on Jan 01, 2014
Title Proton irradiation augments the reduction in tumor progression observed with advanced age
Organism Mus musculus
Experiment type Expression profiling by array
Summary Proton irradiation is touted for its improved tumor targeting due to the physical advantages of ion beams for radiotherapy. Recent studies from our laboratory have shown that, in addition to targeting advantages, proton irradiation can inhibit angiogenic and immune factors and thereby modulate tumor progression. High-energy protons also constitute a principal component of the galactic cosmic rays to which astronauts are exposed. Increased understanding of the biological effects of proton exposure would thus contribute to both improved cancer therapy and carcinogenesis risk assessment for space travel. In addition, age plays a major role in tumor incidence and is a critical consideration for estimating cancer risk. We investigated the effects of host age and proton exposure on tumor progression. Tumor lag time and growth dynamics were tracked following injection of murine Lewis lung carcinoma (LLC) cells into young (68 day) versus old (736 day) mice with or without coincident irradiation. Tumor progression was suppressed in old compared to young mice. Differences in progression were further modulated by proton irradiation (1GeV), with increased inhibition evident in old mice. Through global transcriptome analysis, TGFβ1 and TGFβ2 were determined to be key players that contributed to the tumor dynamics observed. These findings point to older hosts providing decreased systemic tumor support, which can be further inhibited by proton irradiation.
 
Overall design For genome-wide expression profiling of tumor tissue, Mouse WG-6 BeadArray chips (Illumina, San Diego, CA) were used. Total RNA was amplified with the Ambion Illumina TotalPrep Amplification Kit (Ambion, Austin, TX) and labeled from all replicate biological samples for each condition. For tumor replicates, thirty tumor samples from adolescent and thirty tumor samples from old mice, for a total of 60 tumor samples, were used. All replicate samples were run individually. For each age group, ten tumor samples had received proton irradiation while twenty tumor samples were from unirradiated mice (as described above). Total RNA was isolated and purified using TRIzol (Invitrogen) and quantified using an Agilent Bioanalyzer. Samples were deemed suitable for amplification and hybridization if they had 28s/18s = 2:1, RIN >7. Total RNA of 500ng per sample was amplified using AmbionTotalPrep, and 1.5ug of the product was loaded onto the chips. Following hybridization at 55C, the chips were washed and then scanned using the Illumina iScan System. The data was checked with GenomeStudio (Illumina) for quality control. In GenomeStudio, data was background subtracted and rank invariant normalization was applied. Data was imported into MultiExperiment Viewer, MeV, for statistical analysis. The statistically significant genes were determined using MeV by applying a one-way ANOVA analysis with standard Bonferroni correction with a FDR <0.05 that resulted in a list of significant genes. Average gene expression signals <10 were filtered out due to signal being
 
Contributor(s) Beheshti A, Peluso M, Hahnfeldt P, Hlatky L
Citation(s) 24568128
Submission date Mar 28, 2013
Last update date Jan 16, 2019
Contact name christine elaine briggs
E-mail(s) cebriggs7135@gmail.com
Phone 617 905-9301
Organization name christine briggs
Department Center for Cancer Systems Biology
Lab Hlatky
Street address 736 Cambridge Street
City Boston
State/province MA
ZIP/Postal code 02135
Country USA
 
Platforms (1)
GPL6887 Illumina MouseWG-6 v2.0 expression beadchip
Samples (57)
GSM1110695 LLC Tumor_Adolescent, rep1
GSM1110696 LLC Tumor_Adolescent, rep2
GSM1110697 LLC Tumor_Adolescent, rep3
Relations
BioProject PRJNA195396

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE45609_RAW.tar 15.8 Mb (http)(custom) TAR
GSE45609_non-normalized.txt.gz 15.8 Mb (ftp)(http) TXT
Processed data included within Sample table
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