Comparative analysis of replication timing among human cancer cell lines using microarray

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The completion of the human genome sequence will greatly accelerate development of a new branch of biosience and provide fundamental knowledge to biomedical research. We used DNA microarray based on the sequence information to measure replication timing of human genome. Megabase-sized zones that replicate early or late in S phase (thus early/late transition) were defined at the sequence level. Using the newly replicated DNA from cell-cycle fractionated HCT116p53(+/+) and HCT1 116p53(-/-), the replication timing was determined and compared at the genome sequence level. In conclusion, we found that the early/late-switch regions of replication timing coincided with unstable regions of the genome and that genome-wide assessment of replication timing by DNA microarray serve as an efficient strategy for identifying cancer-related genes.