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Genomics & informatics v.4 no.3, 2006년, pp.129 - 132  

GraPT: Genomic InteRpreter about Predictive Toxicology

Woo Jung-Hoon    (Seoul National University Biomedical Informatics(SNUBI), Interdisciplinary Program in Bioinformatics, Seoul National University   ); Park Yu-Rang    (Seoul National University Biomedical Informatics(SNUBI)   ); Jung Yong    (Seoul National University Biomedical Informatics(SNUBI)   ); Kim Ji-Hun    (Seoul National University Biomedical Informatics(SNUBI)   ); Kim Ju-Han    (Seoul National University Biomedical Informatics(SNUBI), Human Genome Research Institute, Seoul National University College of Medicine  );
  • 초록

    Toxicogenomics has recently emerged in the field of toxicology and the DNA microarray technique has become common strategy for predictive toxicology which studies molecular mechanism caused by exposure of chemical or environmental stress. Although microarray experiment offers extensive genomic information to the researchers, yet high dimensional characteristic of the data often makes it hard to extract meaningful result. Therefore we developed toxicant enrichment analysis similar to the common enrichment approach. We also developed web-based system graPT to enable considerable prediction of toxic endpoints of experimental chemical.


  • 주제어

    toxicogenomics .   predictive toxicology .   high-dimensional data .   toxicant enrichment analysis .   web-based system .   prediction .   toxic endpoints.  

  • 참고문헌 (11)

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    2. Benjamini, Y. and Hochberg, Y. (1995). Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. Statist. Soc. 57, 289-300 
    3. Fielden, M.R. and Zacharewski, T.R. (2001). Challenges and limitation of genen expression profiling in mechanistic and predictive toxicology. Toxicological Sciences 60, 6-10 
    4. Hamadeh, H.K., Amin, R.P., Paules, R.S., and Afshari, C.A. (2002). An overview of toxicogenomics. Curr. Issues Mol. Biol. 4, 45-56 
    5. Mattingly, C.J., Colby, G.T., Forrest, J.N., and Boyer, J.L. (2003). The Comparative Toxicogenomics Database (CTD). Environ Health Perspect 111, 793-795 
    6. Thukral, S.K., Nordone, P.J., Hu, R., Sullivan, L., Galambos, E., Fitzpatrick, V.D., Healy, L., Bass, M.B., Cosenza, M.E., and Afshari, C.A. (2005). Prediction of Nephrotoxicant Action and Identification of Candidate Toxicity-Related Biomarkers. Toxicol. Pathol. 33, 343-355 
    7. Storey, J.D. and Tibshirani, R. (2003). Statistical significance for genome wide studies. Proc. Natl. Acad. Sci. USA 100, 9440-9445 
    8. Lettieri, T. (2006). Recent Applications of DNA Microarray Technology to Toxicology and Ecotoxicololgy. Environmental Health Perspective 114, 4-9 
    9. Kharasch, E.D., Schroeder, J.L., Bammler, T., Beyer, R., and Srinouanprachanh, S. (2006). Gene Expression Profiling of Nephrotoxicity from the Sevoflurane Degradation Product Fluoromethyl-2,2-difluoro-1-(trifluoro-methyl) vinyl Ether ("Compound A") in Rats. Toxicol. Sci. 90, 419-431 
    10. Laura, S., Lee, E.B., and Eric, B.W. (2004). Toxicogenomics in Predictive Toxicology in Drug Development. Chemistry and Biology 11, 161-171 
    11. Lovett, R.A. (2000). Toxicogenomics. Toxicogists brace for genomics revolution. Science 289, 536-537 

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