Computational analysis and prediction for exons of PAC579 genomic sequence

Science in China. Series C, Life Sciences
Y HuangJ Gu

Abstract

To isolate the novel genes related to human hepatocellular carcinoma (HCC), we sequenced P1-derived artificial chromosome PAC579 (D17S926 locus) mapped in the minimum LOH (loss of heterozygosity) deletion region of chromosome 17p13.3 in HCC. Four novel genes mapped in this genomic sequence area were isolated and cloned by wet-lab experiments, and the exons of these genes were located. 0-60 kb of this genomic sequence including the genes of interest was scanned with five different computational exon prediction programs as well as four splice site recognition programs. After analyzing and comparing the computationally predicted results with the wet-lab experiment results, some potential exons were predicted in the genomic sequence by using these programs.

References

Jul 5, 1992·Journal of Molecular Biology·R GuigóT Smith
Jul 5, 1991·Journal of Molecular Biology·S BrunakS Knudsen
Jan 22, 1982·Nucleic Acids Research·S M Mount
Apr 21, 1995·Journal of Molecular Biology·E E Snyder, G D Stormo
Jun 15, 1996·Genomics·M Burset, R Guigó
Oct 1, 1996·Computer Applications in the Biosciences : CABIOS·J M Claverie, S Audic
Jan 21, 1997·Proceedings of the National Academy of Sciences of the United States of America·M Q Zhang
Apr 25, 1997·Journal of Molecular Biology·C Burge, S Karlin
May 23, 1998·Human Molecular Genetics·M Q Zhang
Aug 24, 1999·Nucleic Acids Research·M Deutsch, M Long
Apr 26, 2000·Genome Research·M G ReeseD Haussler

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