Rapid progress in human genome project has significantly speeded up the discovery in genetic research and disease research. Sequence analysis and bioinformatics play a vital role in understanding genetic basis of human diseases. One of my major interest is to apply bioinformatics to genetic research. Bioinformatics approach to cancer gene discovery. DNA sequence analysis has been used to generate physical map consisting of human BAC clones spanning LOH regions in hepatocellular carcinoma and esophageal cancer. Sequence analysis is also used to assemble candidate gene map and to construct intron-exon map for mutational analysis of candidate genes. We will also identify cancer genes based on sequence analysis of conserved gene family in model system. Informatics solution for research. We are interested in identifying genetic elements important for genomic imprinting and genomic instability. We will develop algorithms based on probabilistic model such as HMM to define consensus sequences for these genetic elements. The consensus sequences will be used to search for additional genetic elements in the human genome. The search result will be validated by experiments. We will also develop tools for high throughput researches and data mining.

National Institute of Health (NIH)
Division of Cancer Epidemiology And Genetics (NCI)
Intramural Research (Z01)
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Cancer Epidemiology and Genetics
United States
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Lee, Maxwell P; Dunn, Barbara K (2008) Influence of genetic inheritance on global epigenetic states and cancer risk prediction with DNA methylation signature: challenges in technology and data analysis. Nutr Rev 66 Suppl 1:S69-72
Riss, Joseph; Khanna, Chand; Koo, Seongjoon et al. (2006) Cancers as wounds that do not heal: differences and similarities between renal regeneration/repair and renal cell carcinoma. Cancer Res 66:7216-24
Hu, Nan; Wang, Chaoyu; Hu, Ying et al. (2005) Genome-wide association study in esophageal cancer using GeneChip mapping 10K array. Cancer Res 65:2542-6
Lin, Wei; Yang, Howard H; Lee, Maxwell P (2005) Allelic variation in gene expression identified through computational analysis of the dbEST database. Genomics 86:518-27
Lee, Maxwell P; Howcroft, Kevin; Kotekar, Aparna et al. (2005) ATG deserts define a novel core promoter subclass. Genome Res 15:1189-97
Lee, Maxwell P (2005) Genome-wide analysis of allele-specific gene expression using oligo microarrays. Methods Mol Biol 311:39-47
Yang, Howard H; Lee, Maxwell P (2004) Application of bioinformatics in cancer epigenetics. Ann N Y Acad Sci 1020:67-76
Wang, Zhining; Fan, Hongtao; Yang, Howard H et al. (2004) Comparative sequence analysis of imprinted genes between human and mouse to reveal imprinting signatures. Genomics 83:395-401
Yang, Howard H; Hu, Ying; Buetow, Kenneth H et al. (2004) A computational approach to measuring coherence of gene expression in pathways. Genomics 84:211-7
Wang, Zhining; Lo, H Shuen; Yang, Howard et al. (2003) Computational analysis and experimental validation of tumor-associated alternative RNA splicing in human cancer. Cancer Res 63:655-7

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