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Optimized blood cell profiling method for genomic biomarker discovery using high-density microarray.

J Shou¹, C Dotson, H-R Qian

¹Integrative Biology, Lilly Research Laboratories, Indianapolis, IN 46285, USA. shou@lilly.com

Biomarkers : Biochemical Indicators of Exposure, Response, and Susceptibility to Chemicals

|September 30, 2005

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This study validates a blood collection system for isolating high-quality RNA from whole blood. This method is suitable for gene expression profiling and biomarker discovery in drug development.

Area of Science:

Biomarker Discovery
Molecular Biology
Genomics

Background:

High-quality biomarkers are crucial for efficient drug discovery and development.
Peripheral blood is a promising source for biomarkers, but challenges exist in its direct profiling.
Current methods face limitations due to sample heterogeneity and ex vivo artifacts.

Purpose of the Study:

To evaluate Applied BioSystems' blood collection system for isolating RNA suitable for microarray analysis.
To assess the quality, stability, and suitability of RNA extracted from whole blood for biomarker discovery.

Main Methods:

Blood samples (human and rat) were collected in TEMPUS tubes.
RNA was extracted using an ABI-6100 semi-automated workstation.
RNA quality and suitability for Affymetrix microarrays were assessed.

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Main Results:

RNA isolated using the TEMPUS tube and ABI-6100 system was stable and of high quality.
The isolated RNA was suitable for Affymetrix microarray applications.
Minimal hemoglobin interference was observed, ensuring efficient labeling and hybridization.

Conclusions:

The TEMPUS tube protocol provides high-quality, stable RNA from whole blood.
This method is an attractive approach for gene expression profiling and biomarker discovery in drug development.
The ease of handling and RNA integrity make it suitable for early clinical studies.