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Semantics column

Published: 28 July 2017 Publication History

Abstract

This quarter's Semantics column features an article by Jean Krivine, a CNRS researcher who is a member of the Proofs, Programs and Systems group that forms a part of the Institute for Fundamental Research in Informatics (IRIF) at Université Paris Diderot. Jean is leader in the application of computer science to Systems Biology, a broad area whose research activities range from biologists in wet labs, to computational scientists devising simulations based on mathematical models, to computer scientists developing models based on computer science models and their underlying principles. Jean's column highlights the tension that arises when wet lab researchers, who are accustomed to time-tested research methodologies, confront new approaches driven by novel applications of computer science and its principles to the problems they face. The column also describes the issues computer scientists face if they want to have a significant impact in a related discipline. Last but surely not least, Jean's description of the Kappa language and its application to protein interactions provides an impressive example of how concurrency theory and techniques developed within computer science can usefully be applied in a related discipline.

References

[1]
Abramsky, Samson and Bob Coecke, A categorical semantics of quantum protocols, Proceedings of the 19th IEEE conference on Logic in Computer Science (LiCS'04). IEEE Computer Science Press (2004).
[2]
Banâtre, J.-P., Coulant, A., and D. Le Metayer, A parallel machine for multiset transformation and its programming style, Future Generation Computer Systems 4 (1988), pp. 133--144.
[3]
Berry, Gèrard and Gèrard Boudol, The chemical abstract machine, Theoretical Computer Science 96 (1992), pp. 217--248.
[4]
The Biocham web page: https://lifeware.inria.fr/biocham/
[5]
Cardelli, L., Strand algebras for DNA computing, Natural Computing 10 (2011), pp. 407--428.
[6]
Kelly, G.M. and M.L. Laplaza, Coherence for compact closed categories, Journal of Pure and Applied Algebra 19, 193213 (1980).
[7]
Selinger, P., Dagger compact closed categories and completely positive maps, Proceedings of the 3rd International Workshop on Quantum Programming Languages, Chicago, June 30--July 1 (2005).

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Published In

cover image ACM SIGLOG News
ACM SIGLOG News  Volume 4, Issue 3
July 2017
79 pages
EISSN:2372-3491
DOI:10.1145/3129173
Issue’s Table of Contents

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Association for Computing Machinery

New York, NY, United States

Publication History

Published: 28 July 2017
Published in SIGLOG Volume 4, Issue 3

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