Toward a Functional Annotation of the Human Genome Using Artificial Transcription Factors
Abstract
We have developed a novel, high-throughput approach to collecting randomly perturbed gene-expression profiles from the human genome. A human 293 cell library that stably expresses randomly chosen zinc-finger transcription factors was constructed, and the expression profile of each cell line was obtained using cDNA microarray technology. Gene expression profiles from a total of 132 cell lines were collected and analyzed by (1) a simple clustering method based on expression-profile similarity, and (2) the shortest-path analysis method. These analyses identified a number of gene groups, and further investigation revealed that the genes that were grouped together had close biological relationships. The artificial transcription factor-based random genome perturbation method thus provides a novel functional genomic tool for annotation and classification of genes in the human genome and those of many other organisms.
Footnotes
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[Supplemental material is available online at www.genome.org. The microarray data from this study have been submitted to GEO under the accession nos.GSM10013-GSM10044 and GSM10069-GSM10168.]
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Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.1397903.
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↵1 Corresponding author. E-MAIL jsk{at}toolgen.com; FAX 82-42-863-3840.
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- Accepted September 18, 2003.
- Received April 2, 2003.
- Cold Spring Harbor Laboratory Press
