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Tytuł artykułu
Identyfikatory
Warianty tytułu
Języki publikacji
Abstrakty
The k-Nearest Neighbor classifier (k-NN) was applied to differentiate two bacterial strains, the wild type and its mug derivative. Bacterial cells were exposed to different concentrations of chloroacetaldehyde and studied under two different conditions, i.e. with and without induction of an adaptive response. We evaluated the influence of adaptation on the wt and mug strains by estimating the probability of misclassification to the class: no adaptation or adaptation. We have also checked differentiation between wt and mug, separately for adapted and non-adapted conditions. Our results confirm the usefulness of the k-NN classifier as a tool for statistical analysis of results of mutagenesis tests.
Wydawca
Czasopismo
Rocznik
Tom
Strony
45--50
Opis fizyczny
Bibliogr. 19 poz., rys., tab.
Twórcy
autor
autor
autor
autor
- Institute of Biocybernetics and Biomedical Engineering, Polish Academy of Sciences, ul. Ks. Trojdena 4, 02-109 Warsaw, Poland, ajozwik@ibib.waw.pl
Bibliografia
- 1. Bartsch H.: Exocyclic adducts as new risk markers for DNA damage in man. In: Exocyclic DNA Adducts in Mutagenesis and Carcinogenesis. Singer B., Bartsch H, (Eds), IARC Scientific Publication No. 150, Lyon 1999, 1-16.
- 2. Sedgwick B., Lindahl T.: Recent progress on the Ada response for inducible repair of DNA alkylation damage. Oncogene. 2002, 21, 8886-8894.
- 3. Matijasevic Z., Sekiguchi M., Ludlum DB.: Release of N2,3-ethenoguanine from chloroacetaldehyde-treated DNA by Escherichia coli 3-methyladenine DNA glycosylase II. Proc. Natl. Acad. Sci. USA 1992, 89(19), 9331-9334.
- 4. Delaney J.C., Smeester L., Wong C., Frick L.E., Taghizadeh K., Wishnok J.S., Drennan C.L., Samson L.D., Essigmann J.M.: AlkB reverses etheno DNA lesions caused by lipid oxidation in vitro and in vivo. Nat. Struct. Mol. Biol. 2005, 12, 855-860.
- 5. Mishina Y., Yang C.G., He C.: Direct repair of the exocyclic DNA adduct 1,N6-ethenoadenine by the DNA repair AlkB proteins. J. Am. Chem. Soc. 2005, 127, 14594-14595.
- 6. Saparbaev M., Laval J.: 3,N4-ethenocytosine, a highly mutagenic adduct, is a primary substrate for Escherichia coli double-stranded uracil-DNA glycosylase and human mismatch-specific thymine-DNA-glycosylase. Proc. Natl. Acad. Sci. USA 1998, 95, 8508-8513.
- 7. Saparbaev M., Langouët S., Privezentzev C.V., Guengerich F.P., Cai H., Elder R.H., Laval J.: N(2)-ethenoguanine, a mutagenic DNA adduct, is a primary substrate of Escherichia coli mismatch-specific uracil-DNA glycosylase and human alkylpurine-DNA-N-glycosylase. J. Biol. Chem. 2002, 277(30), 26987-26993.
- 8. Saastamoinen A., Huupponen E., Varri A., Hasan J., Himanen S-L.: Computer program for automated sleep depth estimation. Comp. Meth. Program. Biomed. 2006, 82, 58-66.
- 9. Shi H., Paolucci U., Vigneau-Callahan K.E., Milbury P.E., Matson W.R., Kristal B.S.: Development of biomarkers based on diet-dependent metabolic serotypes: practical issues in development of expert systems-based classification models in metabolomic studies. OMICS J. Int. Biol. 2004, 8(3), 197-208.
- 10. Sokołowska B., Jóźwik A.: Recognition of cycles of repeated hypoxia on the basis of time periods in biological model. In: Kurzyński M., Puchala E., Wozniak M., Zolnierek A., Computer Recognition Systems2, ASC 45, Springer-Verlag Berlin Heidelberg 2007, 778-785.
- 11. Sokołowska B., Jóźwik A., Pokorski M.: A fuzzy-classifier system to distinguish respiratory pattern evolving after diaphragm paralysis in the cat. Jpn. J. Physiol. 2003, 53(4), 301-307.
- 12. Tsai C-A., Chen C-H., Lee T-C., Ho I-C., Yang U-C., Chen J.J.: Gene selection for sample classifications in microarray experiments. DNA and Cell Biol. 2004, 23(10), 607-614.
- 13. Maciejewska A. et al., 2008, in preparation.
- 14. Devijver P.A., Kittler J.: Pattern Recognition: A Statistical Approach, Prentice Hall, London 1982.
- 15. Duda R.O., Hart P.E., Stock D.G.: Pattern Classification, John Wiley and Sons, New York 2001.
- 16. Fix E., Hodges J.L.: Discriminatory Analysis. Nonparametric Discrimination Small Sample Performance, project 21-49-004, Report Number 11, USAF School of Aviation Medicine, Randolph Field, Texas 1952, 280-322, reprinted in the book: Dasarathy B.V. "NN Pattern Classification Techniques", IEEE Computer Society Press 1991, 40-56.
- 17. Borys E., Mroczkowska-Slupska M.M., Kusmierek J.T.: The induction of adaptive response to alkylating agents in Escherichia coli reduces the frequency of specific C→T mutations in chloroacetaldehyde-treated M13 glyU phage. Mutagenesis 1994, 9, 407-410.
- 18. Jurado J., Maciejewska A., Krwawicz J., Laval J., Saparbaev M.K.: Role of mismatch-specific uracil-DNA glycosylase in repair of 3,N4-ethenocytosine in vivo. DNA Repair. 2004, 3, 1579-1590.
- 19. Mroczkowska M.M., Kolasa I.K., Kusmierek J.T.: Chloroacetaldehyde-induced mutagenesis in Escherichia coli: specificity of mutations and modulation by induction of the adaptive response to alkylating agents. Mutagenesis 1993, 8, 341-348.
Typ dokumentu
Bibliografia
Identyfikator YADDA
bwmeta1.element.baztech-article-BPZ1-0045-0022