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Nucleic Acids Research, 2001, Vol. 29, No. 10 e46
© 2001 Oxford University Press

Gene expression profiling using a novel method: amplified differential gene expression (ADGE)

Zhijian J. Chen, Hongxie Shen and Kenneth D. Tew*

Department of Pharmacology, Fox Chase Cancer Center, 7701 Burholme Avenue, Philadelphia, PA 19111, USA

Amplified differential gene expression (ADGE) is a novel technique, designed to profile gene expression of the whole transcriptome or to compare expression of a set of genes between two samples. ADGE employs hybridization to quadratically amplify the ratio of an expressed gene between control and tester samples before displaying. The subtle structures of adapters and primers are designed for displaying the amplified ratio of an expressed gene between two samples. Four selective nucleotides at the 3' end of primers are used to increase PCR efficiency for targeted molecules and to improve detection of PCR products. Double PCR with the same pair of primers expands the detection range, especially for genes of low abundance. Integration of these steps makes ADGE sensitive and accurate. Application to drug resistant human tumor cell lines showed that ADGE accurately profiled expression levels for induced, repressed or unchanged genes. The qualitative expression patterns for ADGE were verified with RT–PCR.

* To whom correspondence should be addressed. Tel: +1 215 728 3137; Fax: +1 215 728 4333; Email: kd_tew{at}fccc.edu


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