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Hsu, Ming-Ta
  • Education: PhD. Biochem., California Institute of  Technology
  • Office: R709, 7F, Tradition Medicine Building
  • Phone: 886-2-28267230
  • This e-mail address is being protected from spambots. You need JavaScript enabled to view it
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  • Research--Regulation of DNA replication: search for tumor specific genes by DNA fingerprinting
  • Regulation of DNA replication in mammalian cells. Eukaryotic chromosomes contain multiple origins of DNA replication. The control of firing of these origins, their mutual interactions, and their relationship to gene transcription are still mostly unknown. My lab is using SV40 origin as a model to address these questions by designing experiments with interactions between origins and between origins and transcription elements.
  • Study of regulome in mammalian cells. All genes must be tightly regulated by regulatory elements. The aim of the research is to find these elements for regulation of cell differentiation and for alterations in cellular programs such as in cancer cells. Many important genes are expressed at such low level that cloning by cDNA route is not able to identify them. To answer these challenging problems we used the oligonucleotide array chip and 454 sequencing platform to map the nuclease-hypersensitive sites (NHSS) in human genome to fish out these elements very efficiently. We have found many elements that are responsive to cell differentiation program and from these elements identify novel genes participating in the differentiation program.
  • Study of methylome in mammalian cells. Epigenetic mechanisms are the key linking phenotypes and genotypes. One of the major epigenetic mechanisms is DNA methylation. We have used Agilent Array-CGH microarray and 454 sequencing platform technique to identify tissue-specific methylated sequences from the mouse and human genome and to identify the biological meaning of these epigenetic changes. In particular we are interested in chromatin domains demarcated by these epigenetic changes that include DNA methylation and histone modifications.
  • Publications
    • Chen Y. J., Yeh S. H., Chen J. T., Wu C. C., Hsu M. T., Tsai S. F., Chen P. J., and Lin C. H. (2000b) Chromosomal changes and clonality relationship between primary and recurrent hepatocellular carcinoma. Gastroenterology, 119:431-440.

    • Chen P. H., Tseng W. B., Chu Y., and Hsu M. T. (2000a) Interference of the simian virus 40 origin of replication by the cytomegalovirus immediate early gene enhancer: evidence for competition of active regulatory chromatin conformation in a single domain. Mol. Cell. Biol., 20:4062-4074.

    • Shann Y. J., and Hsu M. T. (2001) Cloning and characterization of liver-specific isoform of Chk1 gene from rat. J. Biol. Chem., 276:48863-48870.

    • Lin S. C., Chen Y. J., Kao S. Y., Hsu M. T., Lin C. H., Yang S. C., Liu T. Y., and Chang K. W. (2002) Chromosomal changes in betel-associated oral squamous cell carcinomas and their relationship to clinical parameters. Oral Oncol., 38:266-273.

    • Chen YJ, Chen, PJ, Lee, MC, Yeh, SH, Hsu, MT, Lin CH.(2002) Chromosomal analysis of hepatic adenoma and focal nodular hyperplasia by comparative genomic hybridization.GENES CHROMOSOMES & CANCER,35:138-143

    • Jong YJ, Li LH, Tsou MH, Chen YJ, Cheng SH, Wang-Wuu S, Tsai SF, Chen CM, Huang AT, Hsu MT, Lin CH.(2004) Chromosomal comparative genomic hybridization abnormalities in early- and late-onset human breast cancers: correlation with disease progression and TP53 mutations. CANCER GENETICS AND CYTOGENETICS. 148(1):55-65

    • Yang TP, Chang TY, Lin CH, Hsu MT, Wang HW.(2006) ArrayFusion: a web application for multi-dimensional analysis of CGH, SNP and microarray data. Bioinformatics 1(22):2697-8

    • Wu BK, Li CC, Chen HJ, Chang JL, Jeng KS, Chou CK, Hsu MT, Tsai TF.(2006) Blocking of G1/S transition and cell death in the regenerating liver of Hepatitis B virus X protein transgenic mice. 340(3):916-28

    • Chien EJ, Liao CF, Chang CP, Pu HF, Lu LM, Shie MC, Hsieh DJ, Hsu MT.(2007) The non-genomic effects on Na+/H+-exchange 1 by progesterone and 20alphahydroxyprogesterone in human T cells. JOURNAL OF CELLULAR PHYSIOLOGY. 211(2):544-50

    • Shih-Hwa Chiou, Chung-Lan Kao, Yi-Wei Chen, Chien-Shu Chien, Shih-Chieh Hung, Jeng-Fan Lo, Yann-Jang Chen, Huang-Hai Ku, Ming-Ta Hsu, Tai-Tong Wong. Identification of CD133-Positive Radioresistant Cells in Atypical Teratoid/Rhabdoid Tumor. PLOS ONE 2008;3(5):e2090

    • Yih-Jyh Shann, Ching Cheng, Chun-Hui Chiao, Dow-Tien Chen, Pei-Hsin Li, and Ming-Ta Hsu. Genome-Wide Mapping and Characterization of Hypomethylated Sites in Human Tissues and Breast Cancer Cell Lines. GENOME RESEARCH 2008;18:791-801

    • Yi-Fang Wu, Shu-Ling Fu, Cheng-Heng Kao, Chu-Wen Yang, Chao-Hsiung Lin, Ming-Ta Hsu, and Ting-Fen Tsai. Chemopreventive Effect of Silymarin on Liver Pathology in HBV X Protein Transgenic Mice. CANCER RESEARCH 2008;68(6):2033-2042

    • Chih-Hung Jen, Tsun-Po Yang, Chien-Yi Tung, Shu-Han Su, Chi-Hung Lin, Ming-Ta Hsu and Hsei-Wei Wang. Signature Evaluation Tool (SET): a java-based tool to evaluate and visualize the sample discrimination abilities of gene expression signatures. BMC BIOINFORMATICS 2008;9(58):

    • Wu CY, Tseng RC, Hsu HS, Wang YC, Hsu MT, (2008)Frequent down-regulation of hRAB37 in metastatic tumor by genetic and epigenetic mechanisms in lung cancer. Lung Cancer 2008 Aug 5.(e pub)

    • Ting-Yu Chang, Yin-Yi Li, Chih-Hung Jen, Tsun-Po Yang, Chi-Hung Lin, Ming-Ta Hsu and Hsei-Wei Wang, (2008)easyExon - A Java-based GUI tool for processing and visualization of Affymetrix exon array data. BMC Bioinformatics (accepted recently)

    • Chia-Hsin Su, Yih-Jyh Shann and Ming-Ta Hsu. 2008. p53 chromatin epigenetic domain organization and premature termination of transcription. Mol. cell. biol. (accepted recently)

    • Yu-Ling Lee, Yi-Feng Chang, Ching Cheng, Chun-Hui Chiao, Ya-Ping Huang, Yen-Ming Lin, Chia-Ling Hua, Tze-Tze Liu , Chuan-Hsiung Chang and Ming-Ta Hsu,(2008)Novel Nuclease Hypersensitive Sites (NHSS) Containing NHSS Repeats, Mitochondria DNA Insertion and Clustered NHSS in HumanGenome are Associated with Human/Primate Genome Evolution.(submitted)

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