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Computational Methods for Understanding Complexity: The Use of Formal Methods in Biology

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Book Series: Frontiers Research Topics ISSN: 16648714 ISBN: 9782889450428 Year: Pages: 111 DOI: 10.3389/978-2-88945-042-8 Language: English
Publisher: Frontiers Media SA
Subject: General and Civil Engineering --- Biotechnology --- Science (General) --- Genetics
Added to DOAB on : 2018-02-27 16:16:44
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The complexity of living organisms surpasses our unaided habilities of analysis. Hence, computational and mathematical methods are necessary for increasing our understanding of biological systems. At the same time, there has been a phenomenal recent progress allowing the application of novel formal methods to new domains. This progress has spurred a conspicuous optimism in computational biology. This optimism, in turn, has promoted a rapid increase in collaboration between specialists of biology with specialists of computer science. Through sheer complexity, however, many important biological problems are at present intractable, and it is not clear whether we will ever be able to solve such problems. We are in the process of learning what kind of model and what kind of analysis and synthesis techniques to use for a particular problem. Some existing formalisms have been readily used in biological problems, others have been adapted to biological needs, and still others have been especially developed for biological systems. This Research Topic has examples of cases (1) employing existing methods, (2) adapting methods to biology, and (3) developing new methods. We can also see discrete and Boolean models, and the use of both simulators and model checkers. Synthesis is exemplified by manual and by machine-learning methods. We hope that the articles collected in this Research Topic will stimulate new research.

Programming Languages and Systems: 27th European Symposium on Programming, ESOP 2018, Held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2018, Thessaloniki, Greece, April 14-20, 2018, Proceedings

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Book Series: Theoretical Computer Science and General Issues Series ISBN: 9783319898834 9783319898841 Year: Volume: 10801 Pages: 1058 DOI: https://doi.org/10.1007/978-3-319-89884-1 Language: English
Publisher: Springer Nature Grant: ETAPS e.V.
Subject: Computer Science
Added to DOAB on : 2018-06-29 15:05:43
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This book constitutes the proceedings of the 27th European Symposium on Programming, ESOP 2018, which took place in Thessaloniki, Greece in April 2018, held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2018.The 36 papers presented in this volume were carefully reviewed and selected from 114 submissions. The papers are organized in topical sections named: language design; probabilistic programming; types and effects; concurrency; security; program verification; program analysis and automated verification; session types and concurrency; concurrency and distribution; and compiler verification.

Tools and Algorithms for the Construction and Analysis of Systems: 24th International Conference, TACAS 2018, Held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2018, Thessaloniki, Greece, April 14-20, 2018, Proceedings, Part II

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Book Series: Theoretical Computer Science and General Issues ISBN: 9783319899626 9783319899633 Year: Volume: 10806 Pages: 465 DOI: https://doi.org/10.1007/978-3-319-89963-3 Language: English
Publisher: Springer Nature Grant: ETAPS e.V.
Subject: Computer Science
Added to DOAB on : 2018-07-19 14:26:47
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The LNCS 10805 and 10806 proceedings set constitutes the proceedings of the 24th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2018, which took place in Thessaloniki, Greece, in April 2018, held as part of the European Joint Conference on Theory and Practice of Software, ETAPS 2018.The total of 43 full and 11 short papers presented in these volumes was carefully reviewed and selected from 154submissions. The papers are organized in topical sections as follows:Part I: theorem proving; SAT and SMT I; deductive verification; software verification and optimization; model checking; and machine learning.Part II: concurrent and distributed systems; SAT and SMT II; security and reactive systems; static and dynamic program analysis; hybrid and stochastic systems; temporal logic and mu-calculus; 7th Competition on Software Verification – SV-COMP.

Computer Aided Verification

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030532918 Year: Pages: 683 DOI: 10.1007/978-3-030-53291-8 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-09-01 00:03:38
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The open access two-volume set LNCS 12224 and 12225 constitutes the refereed proceedings of the 32st International Conference on Computer Aided Verification, CAV 2020, held in Los Angeles, CA, USA, in July 2020.* The 43 full papers presented together with 18 tool papers and 4 case studies, were carefully reviewed and selected from 240 submissions. The papers were organized in the following topical sections: Part I: AI verification; blockchain and Security; Concurrency; hardware verification and decision procedures; and hybrid and dynamic systems. Part II: model checking; software verification; stochastic systems; and synthesis. *The conference was held virtually due to the COVID-19 pandemic.

Tools and Algorithms for the Construction and Analysis of Systems

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030451905 Year: Pages: 501 DOI: 10.1007/978-3-030-45190-5 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-05-14 09:30:00
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This open access two-volume set constitutes the proceedings of the 26th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2020, which took place in Dublin, Ireland, in April 2020, and was held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2020. The total of 60 regular papers presented in these volumes was carefully reviewed and selected from 155 submissions. The papers are organized in topical sections as follows: Part I: Program verification; SAT and SMT; Timed and Dynamical Systems; Verifying Concurrent Systems; Probabilistic Systems; Model Checking and Reachability; and Timed and Probabilistic Systems. Part II: Bisimulation; Verification and Efficiency; Logic and Proof; Tools and Case Studies; Games and Automata; and SV-COMP 2020.

Tools and Algorithms for the Construction and Analysis of Systems

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030452377 Year: Pages: 425 DOI: 10.1007/978-3-030-45237-7 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-05-14 09:30:03
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This open access two-volume set constitutes the proceedings of the 26th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2020, which took place in Dublin, Ireland, in April 2020, and was held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2020. The total of 60 regular papers presented in these volumes was carefully reviewed and selected from 155 submissions. The papers are organized in topical sections as follows: Part I: Program verification; SAT and SMT; Timed and Dynamical Systems; Verifying Concurrent Systems; Probabilistic Systems; Model Checking and Reachability; and Timed and Probabilistic Systems. Part II: Bisimulation; Verification and Efficiency; Logic and Proof; Tools and Case Studies; Games and Automata; and SV-COMP 2020.

Programming Languages and Systems

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030449148 Year: Pages: 772 DOI: 10.1007/978-3-030-44914-8 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-05-14 09:30:21
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This open access book constitutes the proceedings of the 29th European Symposium on Programming, ESOP 2020, which was planned to take place in Dublin, Ireland, in April 2020, as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2020. The actual ETAPS 2020 meeting was postponed due to the Corona pandemic. The papers deal with fundamental issues in the specification, design, analysis, and implementation of programming languages and systems.

Computer Aided Verification

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030532888 Year: Pages: 669 DOI: 10.1007/978-3-030-53288-8 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-09-01 00:03:41
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The open access two-volume set LNCS 12224 and 12225 constitutes the refereed proceedings of the 32st International Conference on Computer Aided Verification, CAV 2020, held in Los Angeles, CA, USA, in July 2020.* The 43 full papers presented together with 18 tool papers and 4 case studies, were carefully reviewed and selected from 240 submissions. The papers were organized in the following topical sections: Part I: AI verification; blockchain and Security; Concurrency; hardware verification and decision procedures; and hybrid and dynamic systems. Part II: model checking; software verification; stochastic systems; and synthesis. *The conference was held virtually due to the COVID-19 pandemic.

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