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Complexity and Expressive Power of Weakly Well-Designed SPARQL.

ABSTRACT: SPARQL is the standard query language for RDF data. The distinctive feature of SPARQL is the OPTIONAL operator, which allows for partial answers when complete answers are not available due to lack of information. However, optional matching is computationally expensive-query answering is PSPACE-complete. The well-designed fragment of SPARQL achieves much better computational properties by restricting the use of optional matching-query answering becomes coNP-complete. On the downside, well-designed SPARQL captures far from all real-life queries-in fact, only about half of the queries over DBpedia that use OPTIONAL are well-designed. In the present paper, we study queries outside of well-designed SPARQL. We introduce the class of weakly well-designed queries that subsumes well-designed queries and includes most common meaningful non-well-designed queries: our analysis shows that the new fragment captures over 99% of DBpedia queries with OPTIONAL. At the same time, query answering for weakly well-designed SPARQL remains coNP-complete, and our fragment is in a certain sense maximal for this complexity. We show that the fragment's expressive power is strictly in-between well-designed and full SPARQL. Finally, we provide an intuitive normal form for weakly well-designed queries and study the complexity of containment and equivalence.

SUBMITTER: Kaminski M

PROVIDER: S-EPMC6560828 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature

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Complexity and Expressive Power of Weakly Well-Designed SPARQL.

Kaminski Mark M Kostylev Egor V EV

Theory of computing systems 20170814 4

SPARQL is the standard query language for RDF data. The distinctive feature of SPARQL is the OPTIONAL operator, which allows for partial answers when complete answers are not available due to lack of information. However, optional matching is computationally expensive-query answering is PSPACE-complete. The well-designed fragment of SPARQL achieves much better computational properties by restricting the use of optional matching-query answering becomes coNP-complete. On the downside, well-designe ...[more]

PMID: 31258387

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Project description:The presumptive function for alpha-tocopherol (αtoc) in membranes is to protect polyunsaturated lipids against oxidation. Although the chemistry of the process is well established, the role played by molecular structure that we address here with atomistic molecular-dynamics simulations remains controversial. The simulations were run in the constant particle NPT ensemble on hydrated lipid bilayers composed of SDPC (1-stearoyl-2-docosahexaenoylphosphatidylcholine, 18:0-22:6PC) and SOPC (1-stearoyl-2-oleoylphosphatidylcholine, 18:0-18:1PC) in the presence of 20 mol % αtoc at 37°C. SDPC with SA (stearic acid) for the sn-1 chain and DHA (docosahexaenoic acid) for the sn-2 chain is representative of polyunsaturated phospholipids, while SOPC with OA (oleic acid) substituted for the sn-2 chain serves as a monounsaturated control. Solid-state (2)H nuclear magnetic resonance and neutron diffraction experiments provide validation. The simulations demonstrate that high disorder enhances the probability that DHA chains at the sn-2 position in SDPC rise up to the bilayer surface, whereby they encounter the chromanol group on αtoc molecules. This behavior is reflected in the van der Waals energy of interaction between αtoc and acyl chains, and illustrated by density maps of distribution for acyl chains around αtoc molecules that were constructed. An ability to more easily penetrate deep into the bilayer is another attribute conferred upon the chromanol group in αtoc by the high disorder possessed by DHA. By examining the trajectory of single molecules, we found that αtoc flip-flops across the SDPC bilayer on a submicrosecond timescale that is an order-of-magnitude greater than in SOPC. Our results reveal mechanisms by which the sacrificial hydroxyl group on the chromanol group can trap lipid peroxyl radicals within the interior and near the surface of a polyunsaturated membrane. At the same time, water-soluble reducing agents that regenerate αtoc can access the chromanol group when it locates at the surface.

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Complexity and Expressive Power of Weakly Well-Designed SPARQL.

Publications

Complexity and Expressive Power of Weakly Well-Designed SPARQL.

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