LNCS 2950 - Aspects of Molecular Computing (Frontmatter Pages)

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Table of Contents XI Plasmids to Solve #3SAT .......................................... 361 Rani Siromoney, Bireswar Das Communicating Distributed H Systems with Alternating Filters ........ 367 Sergey Verlan Publications by Thomas J. Head .................................... 385 Author Index ................................................ 391
Solving Graph Problems by P Systems with Restricted Elementary Active Membranes Artiom Alhazov 1,2 , Carlos Martín-Vide 2 , and Linqiang Pan 2,3 1 Institute of Mathematics and Computer Science Academy of Science of Moldova Str. Academiei 5, Chi¸sinău, MD 2028, Moldova artiom@math.md 2 Research Group on Mathematical Linguistics Rovira i Virgili University Pl. Imperial Tàrraco 1, 43005 Tarragona, Spain aa2.doc@estudiants.urv.es, cmv@astor.urv.es, lp@fll.urv.es 3 Department of Control Science and Engineering Huazhong University of Science and Technology Wuhan 430074, Hubei, People’s Republic of China lqpan@mail.hust.edu.cn Abstract. P systems are parallel molecular computing models based on processing multisets of objects in cell-like membrane structures. In this paper we give membrane algorithms to solve the vertex cover problem and the clique problem in linear time with respect to the number of vertices and edges of the graph by recognizing P systems with active membranes using 2-division. Also, the linear time solution of the vertex cover problem is given using P systems with active membranes using 2-division and linear resources. 1 Introduction The P systems are a class of distributed parallel computing devices of a biochemical type, introduced in [2], which can be seen as a general computing architecture where various types of objects can be processed by various operations. It comes from the observation that certain processes which take place in the complex structure of living organisms can be considered as computations. For a motivation and detailed description of various P system models we refer the reader to [2],[4]. In [3] Păun considered P systems where the number of membranes increases during a computation by using some division rules, which are called P systems with active membranes. These systems model the natural division of cells. In [6] Pérez-Jiménez et al. solve the satisfiability problem in linear time with respect to the number of variables and clauses of propositional formula by recognizing P systems with active membranes using 2-division. Thus the vertex cover problem and the clique problem belonging to the class of NP problems can also N. Jonoska et al. (Eds.): Molecular Computing (Head Festschrift), LNCS 2950, pp. 1–22, 2004. c○ Springer-Verlag Berlin Heidelberg 2004
Page 1 and 2: Lecture Notes in Computer Science 2
Page 3 and 4: Nata˘sa Jonoska Gheorghe Păun Grz
Page 5 and 6: Thomas J. Head
Page 7 and 8: VIII Preface portant to keep in min
Page 9: X Table of Contents Formal Properti
Page 13 and 14: Solving Graph Problems by P Systems
Page 25 and 26: where Solving Graph Problems by P S
Page 33 and 34: Writing Information into DNA Masano
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Page 37 and 38: Writing Information into DNA 27 Fig
Page 39 and 40: Writing Information into DNA 29 Dea
Page 41 and 42: 5 Results 5.1 DNA Code for the Engl
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Page 45 and 46: Writing Information into DNA 35 101
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2 Definitions Definition 1. A strea
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Eilenberg P Systems with Symbol-Obj
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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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--- ◦ ❄ ⊗ γ ✲ A Proof of R
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The Duality of Patterning in Molecu
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The Duality of Patterning in Molecu
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Membrane Computing: Some Non-standa
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where: Membrane Computing: Some Non
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where: Membrane Computing: Some Non
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The P Versus NP Problem Through Cel
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Realizing Switching Functions Using
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Realizing Switching Functions Using
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AND Gate Realizing Switching Functi
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NOR Gate Realizing Switching Functi
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Plasmids to Solve #3SAT Rani Siromo
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Plasmids to Solve #3SAT 363 A comme
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Plasmids to Solve #3SAT 365 from th
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Communicating Distributed H Systems
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Proof Communicating Distributed H S
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Books: Publications by Thomas J. He
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Publications by Thomas J. Head 387
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LNCS 2950 - Aspects of Molecular Computing (Frontmatter Pages)

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