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Series GSE28691 Query DataSets for GSE28691
Status Public on Feb 17, 2012
Title Characterization of an Oxaliplatin Sensitivity Predictor in a preclinical Murine Model of Colorectal Cancer
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Despite advances in contemporary chemotherapeutic strategies, long term survival still remains elusive for patients with metastatic colorectal cancer. A better understanding of the molecular markers of drug sensitivity to match therapy with patient is needed to improve clinical outcomes. In this study, we used in vitro drug sensitivity data from the NCI-60 cell lines together with their Affymetrix microarray data to develop a gene expression signature to predict sensitivity to oxaliplatin. In order to validate our oxaliplatin sensitivity signature, Patient-Derived Colorectal Cancer Explants (PDCCEs) were developed in NOD-SCID mice from resected human colorectal tumors. Analysis of gene expression profiles found similarities between the PDCCEs and their parental human tumors, suggesting their utility to study drug sensitivity in vivo. The oxaliplatin sensitivity signature was then validated in vivo with response data from 14 PDCCEs treated with oxaliplatin and was found to have an accuracy of 92.9% (Sensitivity=87.5%; Specificity=100%). Our findings suggest that PDCCEs can be a novel source to study drug sensitivity in colorectal cancer. Furthermore, genomic-based analysis has the potential to be incorporated into future strategies to optimize individual therapy for patients with metastatic colorectal cancer.
Overall design Fourty-two human tumors and murine explants of colorectal origin, both primary colon and of various metastatic sites, were processed for total RNA. The samples included RNA from 14 patient samples in addition to RNA from Patient-Derived Colorectal Cancer Explant (PDCCEs) generated from these 14 patient samples. The PDCCEs were processed as fresh frozen whole tumor in addition to formalin-fixed paraffin-embedded (FFPE) tumors.
Contributor(s) Kim MK, Osada T, Barry WT, Yang XY, Freedman JA, Tsamis KA, Datto MB, Clary BM, Morse MA, Febbo PG, Lyerly HK, Hsu DS
Citation(s) 22351745
Submission date Apr 18, 2011
Last update date Dec 06, 2018
Contact name David Hsu
Phone 919-684-1739
Fax 919-668-4777
Organization name Duke University
Department Institute for Genome Sciences and Policy
Street address Rm 2167 CIEMAS Bldg, 101 Science Dr.
City Durham
State/province NC
ZIP/Postal code 27710
Country USA
Platforms (1)
GPL571 [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array
Samples (42)
GSM710556 HumanTumor_FreshFrozen_CRC007
GSM710557 HumanTumor_FreshFrozen_CRC010
GSM710558 HumanTumor_FreshFrozen_CRC012
BioProject PRJNA139021

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
GSE28691_RAW.tar 72.5 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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