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Multiple Word DNA Computing on Surfaces

Multiple Word DNA Computing on Surfaces. L. Wang, Q. Liu, R.M. Corn, A.E. Condon, and L.M. Smith Journal of the American Chemical Society , vol. 122, no. 31, pp. 7435-7440, August 2000 Cho, Dong-Yeon. Previous Study. Complement sequence. E . coli exonuclease I. DNA Word Strategy.

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Multiple Word DNA Computing on Surfaces

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  1. Multiple Word DNA Computing on Surfaces L. Wang, Q. Liu, R.M. Corn, A.E. Condon, and L.M. Smith Journal of the American Chemical Society, vol. 122, no. 31, pp. 7435-7440, August 2000 Cho, Dong-Yeon

  2. Previous Study Complement sequence E. coli exonuclease I

  3. DNA Word Strategy • Store information in “DNA words” of fixed length (16mers) • Link DNA Words together to form large combinational sets of molecules (T4 DNA ligase)

  4. 16mer Word Design • Word Structure • DNA Word Label Format • Have a 50% GC content • Arranged ABCD…DCBA to avoid hairpins and slide matches • Complete mismatches with the other word labels

  5. Sequence Design • Surface-bound Oligonucleotides • Two-Word DNA Sequences

  6. MARK and DESTROY Operations

  7. Example

  8. Discussion • Scale-up of the DNA Computing Process • 108 different word sequence for each 6 words • 1086 = 1.6  1012 (240 = 1.1  1012) • Oligonucleotide length: (16  6) + 16 + 4 + 5 = 121 • 6 words: 16  6 = 96 • 1 primer site: 16 • 1 Restriction site: 4 • 1 Adjacent spacer: 5

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