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Clinical Chemistry 53: 1860-1863, 2007. First published August 23, 2007; 10.1373/clinchem.2007.089201
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(Clinical Chemistry. 2007;53:1860-1863.)
© 2007 American Association for Clinical Chemistry, Inc.

Technical Briefs

Genomic Profiling of Circulating Plasma RNA for the Analysis of Cancer

Manuel Collado1, Vanesa Garcia2, Jose Miguel Garcia2, Isabel Alonso2, Luis Lombardia1, Ramon Diaz-Uriarte1, Luis A. López Fernández3, Angel Zaballos4, Félix Bonilla2 and Manuel Serrano1,a

1 Spanish National Cancer Research Centre (CNIO), Madrid, Spain; 2 Department of Oncology, Hospital Universitario Puerta de Hierro, Madrid, Spain; 3 Department of Pharmacogenetics and Pharmacogenomics, Hospital Universitario Gregorio Marañón, Madrid, Spain; 4 National Centre of Biotechnology (CNB-CSIC), Campus Universidad Autónoma, Madrid, Spain

aaddress correspondence to this author at: Spanish National Cancer Research Centre (CNIO), 3 Melchor Fernández Almagro St., 28029 Madrid, Spain; fax 34-91-732-8028, e-mail mserrano{at}cnio.es


Abstract

Background: The blood of cancer patients is known to contain fragments of RNA released from the tumor. The application of genomic profiling techniques to plasma RNA may allow the unbiased selection of cancer markers in the blood, but the informative value of genomic profiling of plasma RNA is currently unknown.

Methods: We used cDNA microarray hybridization to perform genomic profiling of plasma RNA from colorectal cancer (CRC) patients and from healthy donors. From a list of 40 genes differentially upregulated in cancer patients, we randomly selected 4 genes for further characterization. These 4 markers were analyzed by quantitative reverse-transcription PCR in a wide set of samples including paired samples from the same CRC patients before and after surgical resection of the tumor.

Results: Three of the selected markers—EPAS1, UBE2D3, and KIAA0101—were confirmed by PCR to be significantly increased in cancer compared to healthy donors. Importantly, 2 of the markers, EPAS1 and UBE2D3, showed a significant decrease after surgery, returning to the levels of healthy donors. Finally, supervised class prediction using these 3 markers correctly (77%) assigned presurgery samples to the CRC group and assigned postsurgery samples from the same patients to the healthy group.

Conclusions: Our findings demonstrate the usefulness of gene expression profiling of circulating plasma RNA to find cancer markers of potential clinical value.




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Relationship Between Tumor and Plasma Levels of hTERT mRNA in Patients with Colorectal Cancer: Implications for Monitoring of Neoplastic Disease
Clin. Cancer Res., November 15, 2008; 14(22): 7444 - 7451.
[Abstract] [Full Text] [PDF]


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