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Series GSE20162 Query DataSets for GSE20162
Status Public on Jan 31, 2011
Title Prediction of in vivo radiation dose in radiotherapy patients using ex vivo and in vivo gene expression signatures
Organism Homo sapiens
Experiment type Expression profiling by array
Summary After defining a gene expression signature that predicted radiation exposure dose with high accuracy in human peripheral white blood cells irradiated ex vivo, we now demonstrate the predictive power of gene expression signatures in blood from patients undergoing total body irradiation. Using whole genome microarray analysis, we have identified genes that respond to radiation exposure in cancer patients in vivo. A 3-nearest neighbor classifier built from these genes correctly predicted samples as exposed to 0, 1.25 or 3.75 Gy with 94% accuracy even when samples from healthy donor controls were included. The same samples were classified with 98% accuracy using a signature previously defined from ex vivo irradiation data. The samples could also be classified as exposed or not exposed with 100% accuracy using multiple methods. The demonstration that ex vivo irradiation is an appropriate model that can provide meaningful prediction of in vivo exposure, and that the signatures are robust across diverse disease states, is an important advance in the application of gene expression for biodosimetry. Translation of these signatures to a fully automated “lab-on-a-chip” device will enable high-throughput screening for large-scale radiological emergencies, as well as making such tests practical for clinical uses.
 
Overall design Radiation induced gene expression was measured in vivo in TBI patients at 4 hours after 1.25Gy exposure or at 24 hours after 3.75Gy exposure with three 1.25Gy split doses (approximately 4 hours apart). A total of 18 TBI patients, diagnosed with a variety of cancers were used in this study. Blood from 14 healthy control individuals was also used for comparison.
 
Contributor(s) Amundson SA, Paul S, Barker CA, Wolden SL
Citation(s) 21388269
Submission date Feb 02, 2010
Last update date Jan 23, 2019
Contact name Sally Amundson
E-mail(s) saa2108@cumc.columbia.edu
Organization name Columbia University
Department Center for Radiological Research
Street address 630 W. 168th St
City New York
State/province NY
ZIP/Postal code 10032
Country USA
 
Platforms (1)
GPL6480 Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name version)
Samples (66)
GSM505930 Pre-TBI Blood_0Gy_rep1_001
GSM505931 TBI Blood_4hr_1.25Gy_rep1_001
GSM505932 TBI Blood_20hr_3.75Gy_rep1_001
Relations
BioProject PRJNA125625

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
GSE20162_RAW.tar 393.3 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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