LNCS 2950 - Aspects of Molecular Computing (Frontmatter Pages)

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364 Rani Siromoney and Bireswar Das Design. Let x1,...,xn be the variables in F , ¬x1,...,¬xn their negations, ci a site associated with station si, ¬ci a site associated with station ¬si, ri the length of the station associated with xi,i=1,...,n,andrn+jthe length of the station associated with literal ¬xj,j =1,...,n. We chose stations in such a way that the sequence [r1,...,r2n] satisfies the property �k i=1 ri
Plasmids to Solve #3SAT 365 from the sums of other subsequences. Since the sequences are chosen from Easy Knapsack, the ri can be retrieved from the sum. From the sum, the subsequence can be efficiently recovered. 5 Breaking the Propositional Logic-Based Cryptosystem J. Kari [5] introduced a cryptosystem based on the propositional logic. He proved that the system was optimal in the sense that any cryptanalytic attack against this can be used to break any other system as well. He also showed that the problem of cryptanalytic attack encountered by the eavesdropper is NPhard. In [6] we had adapted the D-D-D procedure of T. Head [1] to give a method of cryptanalytic attack against this cryptosystem. Now using the C-D-E-L procedure and the method explained above to solve #3SAT, we note that a more efficient and better method of cryptanalytic attack against the propositional logic-based cryptosystem of Kari can be given. This is done by applying #SAT to F = ¬p0 ∧ p1, wherep0 and p1 are the public keys. The final solution wil give all those truth assignment that make p0 false and p1 true. There are several advantages over the earlier method. In the cryptanalytic attack proposed in [6] modifying D-D-D, it was required to execute the DNA algorithm for each bit in the cryptotext, while in the present C-D-E-L method (combining features of D-D-D and C-D-E-L) the final solution gives all the truth assignments. 6 Conclusion In Adleman’s and Lipton’s methods, the construction of the exponential number of all potential solutions is considered at the initial step. In Tom Head’s procedure, this is replaced by initialization with one single circular molecular variety, which is seen to be capable of providing representation of all solutions as computation progresses. However, an exponential number of plasmids is necessary, and this limits the size of problems which can be handled in the laboratory. We hope to work on procedures which will overcome this difficulty. References 1. T. Head, Circular Suggestions for DNA Computing, inPattern Formation in Biology, Vision and Dynamics (A. Carbone, M Gromov, and P. Prusinkeiwicz, Eds.), World Scientific, Singapore, 2000, 325–335. 2. T. Head, Splicing Systems, Aqueous Computing, and Beyond, in Unconventional Models of Computation, UMC 2K (I. Antoniou, C.S. Calude, and M.J. Dinneen, Eds.), Springer, Berlin, 2001, 68–84. 3. T. Head, G. Rozenberg, R.S. Bladergreen, C.K.D. Breek, P.H.M. Lommerse, and H.P.S. Spaink, Computing with DNA by Operating on Plasmids, BioSystems, 57 (2000), 87–93.
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Lecture Notes in Computer Science 2
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Nata˘sa Jonoska Gheorghe Păun Grz
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Thomas J. Head
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VIII Preface portant to keep in min
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X Table of Contents Formal Properti
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Solving Graph Problems by P Systems
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where Solving Graph Problems by P S
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Writing Information into DNA Masano
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Writing Information into DNA 25 Ham
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Writing Information into DNA 27 Fig
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Writing Information into DNA 29 Dea
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5 Results 5.1 DNA Code for the Engl
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Writing Information into DNA 33 3.
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Writing Information into DNA 35 101
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Balance Machines: Computing = Balan
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+ .. . + Balance Machines: Computin
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x Balance Machines: Computing = Bal
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1 Balance Machines: Computing = Bal
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Eilenberg P Systems with Symbol-Obj
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2 Definitions Definition 1. A strea
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5 Conclusions Eilenberg P Systems w
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Molecular Tiling and DNA Self-assem
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3 Molecular Self-assembly Processes
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8 Hierarchical Tiling Molecular Til
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References Molecular Tiling and DNA
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On Some Classes of Splicing Languag
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ˆxa ˆby ✬ ✩✬ ✩ a b x y
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The Power of Networks of Watson-Cri
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Fixed Point Approach to Commutation
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Here the last one holds if and only
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� � � � � Fixed Point App
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Remarks on Relativisations and DNA
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Splicing Test Tube Systems and Thei
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Splicing Test Tube Systems 141 the
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Splicing Test Tube Systems 143 to a
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Splicing Test Tube Systems 145 6. R
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Splicing Test Tube Systems 147 (c)
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I0 Ai i Splicing Test Tube Systems
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Splicing Test Tube Systems 151 4. J
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Digital Information Encoding on DNA
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DNA-based Cryptography Ashish Gehan
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DNA-based Cryptography 169 concern.
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DNA-based Cryptography 171 The one-
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DNA-based Cryptography 173 of DNA t
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DNA-based Cryptography 175 Fig. 3.
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DNA-based Cryptography 177 the comp
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DNA-based Cryptography 179 can be c
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DNA-based Cryptography 181 4.4 DNA-
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DNA-based Cryptography 183 Fig. 7.
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DNA-based Cryptography 185 offer li
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DNA-based Cryptography 187 30. C. M
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Splicing to the Limit Elizabeth Goo
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Splicing to the Limit 191 molecular
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Splicing to the Limit 193 Discussio
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Example 9. The splicing rules are S
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−2α � kNNk = −2αMN, k α
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Finally we define the limit languag
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6 Conclusion Splicing to the Limit
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Formal Properties of Gene Assembly
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(a) (b) Formal Properties of Gene A
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n-Insertion on Languages Masami Ito
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n-Insertion on Languages 215 3. ∀
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n-Insertion on Languages 217 Theore
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Transducers with Programmable Input
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1 01 s 0 Transducers with Programma
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order β l Transducers with Program
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start tile Transducers with Program
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Methods for Constructing Coded DNA
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u u Methods for Constructing Coded
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On the Universality of P Systems wi
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An Algorithm for Testing Structure
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Definition 1. Define the relation
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280 Manfred Kudlek Definition 5. Co
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On Languages of Cyclic Words 283 Th
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On Languages of Cyclic Words 285 No
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On Languages of Cyclic Words 287 Th
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A DNA Algorithm for the Hamiltonian
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Formal Languages Arising from Gene
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A Proof of Regularity for Finite Sp
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A Proof of Regularity for Finite Sp
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LNCS 2950 - Aspects of Molecular Computing (Frontmatter Pages)

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