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Statistical mechanics of thermal denaturation of DNA oligomers

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Abstract

Double stranded DNA chain is known to have non-trivial elasticity. We study the effect of this elasticity on the denaturation profile of DNA oligomer by constraining one base pair at one end of the oligomer to remain in unstretched (or intact) state. The effect of this constraint on the denaturation profile of the oligomer has been calculated using the Peyrard-Bishop Hamiltonian. The denaturation profile is found to be very different from the free (i.e. without the constraint) oligomer. We have also examined how this constraint affects the denaturation profile of the oligomer having a segment of defect sites located at different parts of the chain.

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References

  1. L Stryer,Biochemistry (W H Freeman and Company, New York, 1995)

    Google Scholar 

  2. S B Smith, L Finzi and C Bustamante,Science 258, 1122 (1992)

    Article  ADS  Google Scholar 

  3. T R Stricket al, Science 271, 1835 (1996)

    Article  ADS  Google Scholar 

  4. T Bockelmann, B Essevaz-Roulet and F Heslot,Phys. Rev. Lett. 79, 4489 (1997) and references therein

    Article  ADS  Google Scholar 

  5. L V Yakushevich,Non-linear physics of DNA (John-Wiley & Sons, 1998)

  6. R M Wartell and A S Benight,Phys. Rep. 126, 67 (1985)

    Article  ADS  Google Scholar 

  7. N Theodorakopoulos, cond-mat/0210188 and references therein

  8. N Theodorakopoulos, T Dauxois and M Peyrard,Phys. Rev. Lett. 85, 6 (2000)

    Article  ADS  Google Scholar 

  9. M Peyrard and A R Bishop,Phys. Rev. Lett. 62, 2755 (1989)

    Article  ADS  Google Scholar 

  10. T Dauxois and M Peyrard,Phys. Rev. Lett. 70, 3935 (1993)

    Article  ADS  Google Scholar 

  11. T Dauxois, M Peyrard and A R Bishop,Phys. Rev. E47, R44 (1993)

    ADS  Google Scholar 

  12. T Dauxois and M Peyrard,Phys. Rev. E51, 4027 (1995)

    ADS  Google Scholar 

  13. D Cule and T Hwa,Phys. Rev. Lett. 79, 2375 (1997)

    Article  ADS  Google Scholar 

  14. A Campa and A Giansanti,Phys. Rev. E58, 3585 (1998)

    ADS  Google Scholar 

  15. Navin Singh and Yashwant Singh,Phys. Rev. E64, 42901 (2001)

    ADS  Google Scholar 

  16. David K Lubensky and David R Nelson,Phys. Rev. Lett. 85, 1572 (2000) and references therein

    Article  ADS  Google Scholar 

Download references

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Authors and Affiliations

  1. Department of Physics, Banaras Hindu University, 221 005, Varanasi, India

    Navin Singh & Yashwant Singh

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  1. Navin Singh
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  2. Yashwant Singh
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Singh, N., Singh, Y. Statistical mechanics of thermal denaturation of DNA oligomers. Pramana - J Phys 61, 345–352 (2003). https://doi.org/10.1007/BF02708314

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