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Optimised Versions of the Ate and Twisted Ate Pairings

Seiichi MATSUDA, Naoki KANAYAMA, Florian HESS, Eiji OKAMOTO
2009 IEICE Transactions on Fundamentals of Electronics Communications and Computer Sciences  
In this paper we propose optimized versions of the Ate and twisted Ate pairings with the loop reduction method and show that both pairings are always at least as fast as the Tate pairing.  ...  The Ate pairing and the twisted Ate pairing for ordinary elliptic curves which are generalizations of the ηT pairing for supersingular curves have previously been proposed.  ...  For these choices of S we call a S and a twist S optimised Ate and optimised twisted Ate pairing.  ... 
doi:10.1587/transfun.e92.a.1660 fatcat:5jtkgbkdqra5fjttqz2hdkomka

Optimised Versions of the Ate and Twisted Ate Pairings [chapter]

Seiichi Matsuda, Naoki Kanayama, Florian Hess, Eiji Okamoto
Cryptography and Coding  
In this paper we propose optimized versions of the Ate and twisted Ate pairings with the loop reduction method and show that both pairings are always at least as fast as the Tate pairing.  ...  The Ate pairing and the twisted Ate pairing for ordinary elliptic curves which are generalizations of the ηT pairing for supersingular curves have previously been proposed.  ...  For these choices of S we call a S and a twist S optimised Ate and optimised twisted Ate pairing.  ... 
doi:10.1007/978-3-540-77272-9_18 dblp:conf/ima/MatsudaKHO07 fatcat:dzsr5tpkynglznutn2l6rwxlvm

Stacking with the unnatural DNA base 6-ethynylpyridone

Douglas J. Gibson, Tanja van Mourik
2017 Chemical Physics Letters  
of E:A-containing duplexes is due to the combined effects of stronger base pairing and enhanced stacking of the E:A base pair.  ...  DFT calculations at the M06-2X/6-31+G(d) and BLYP-D3/6-31+G(d) levels on various base pairs, stacked bases and stacked base pairs in continuum solvation water suggest that the observed increased stability  ...  Acknowledgements We are grateful to EaStCHEM for computational support via the EaStCHEM Research Computing Facility.  ... 
doi:10.1016/j.cplett.2016.12.009 fatcat:4bhbghkcrnaihpvsnm4bd2iviq

The structure of tagetitoxin

Abil E. Aliev, Kersti Karu, Robin E. Mitchell, Michael J. Porter
2016 Organic and biomolecular chemistry  
The previously reported structure of tagetitoxin is incorrect. A new structure of tagetitoxin is proposed based on the NMR analysis.  ...  The authors acknowledge the use of the UCL Legion High Performance Computing Facility (Legion@UCL), and associated support services, in the completion of this work.  ...  We thank University College London (UCL) for the provision of computational facilities.  ... 
doi:10.1039/c5ob02076j pmid:26517805 fatcat:mlinkl2bbvh3riwmnu2juriupu

Stacking of the mutagenic base analogue 5-bromouracil: energy landscapes of pyrimidine dimers in gas phase and water

Leo F. Holroyd, Tanja van Mourik
2015 Physical Chemistry, Chemical Physics - PCCP  
5-Bromouracil does not stack stronger than thymine when enthalpic and solvent contributions are taken into account.  ...  LFH is grateful to the Engineering and Physical Sciences Research Council for studentship support through the Doctoral Training Account scheme (grant code EP/K503162/1).  ...  Acknowledgements The authors gratefully acknowledge EaStCHEM for computer time on the EaStCHEM Research Computing Facility.  ... 
doi:10.1039/c5cp04612b pmid:26507806 fatcat:3xz2mgeo7zazrctv4bdv6j3moy

Halogen-Bonded Guanine Base Pairs, Quartets and Ribbons

Nicholas J. Thornton, Tanja van Mourik
2020 International Journal of Molecular Sciences  
to optimise the N-X•••N halogen bond.  ...  In the halogenated base pairs (except the Cl-base pair, which has a very non-planar structure with no halogen bonds) and R-I ribbons (except the At trimer), the potential N-X•••O interaction is sacrificed  ...  Acknowledgments: We thank EaStCHEM for support via the EaStCHEM Research Computing Facility. Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/ijms21186571 pmid:32911856 fatcat:ma3ggpjh4bhf3h3i77g6rsfp54

Development and Design Optimisation of a Small Floating Hydroelectric Power Plant

Tomas Kalina, Ladislav Illes, Martin Jurkovic, Vladimir Luptak
2021 Acta Polytechnica Hungarica  
In the study, five different versions of floating pontoons are designed and analysed in the first phase.  ...  Finally, the further direction of research is presented, with a focus on maximising the performance and further optimisation of the small floating hydroelectric power plant structures.  ...  In order to achieve a smoother course of hydraulic pressures and torques, but also to reduce vibrations and possible resonant states of the wheel pairs, the wheel was divided into three mutually twisted  ... 
doi:10.12700/aph.18.10.2021.10.3 fatcat:pq6uczldhrbatabrjsv4yedeyu

Twisted Ate pairing on hyperelliptic curves and applications

FangGuo Zhang
2010 Science China Information Sciences  
In this paper we show that the twisted Ate pairing on elliptic curves can be generalized to hyperelliptic curves, and give a series of variations of the hyperelliptic Ate and twisted Ate pairings.  ...  Using the hyperelliptic Ate pairing and twisted Ate pairing, we propose a new approach to speeding up the Weil pairing computation.  ...  [8] showed that the Ate pairing is always at least as fast as the Tate pairing by providing the optimized versions of the Ate and the twisted Ate pairing.  ... 
doi:10.1007/s11432-010-4024-7 fatcat:c4eamkvj6bfftgkkganxfyexeq

A roadmap for the computation of persistent homology

Nina Otter, Mason A Porter, Ulrike Tillmann, Peter Grindrod, Heather A Harrington
2017 EPJ Data Science  
The field of PH computation is evolving rapidly, and new algorithms and software implementations are being updated and released at a rapid pace.  ...  We make publicly available all scripts that we wrote for the tutorial, and we make available the processed version of the data sets used in the benchmarking.  ...  · 10 6 6 · 10 6 7 · 10 6 8 · 10 6 9 · 10 6 σ 2 positive, paired with σ 4 no interval, since σ 2 and σ 4 enter at the same time in the filtration σ 3 positive, paired with σ 5 interval [2, 3) in H 0 .  ... 
doi:10.1140/epjds/s13688-017-0109-5 pmid:32025466 pmcid:PMC6979512 fatcat:yjbvuyg35fcs5cz5xse6brzg3e

PM6 quantum chemical study of the H-bonded and stacked associates of the adenine and thymine DNA bases: The nature of base stacking

Victor Danilov, Tanja van Mourik
2008 Molecular Physics  
To cite this version: Victor I. Danilov, Tanja Van Mourik. A PM6 quantum chemical study of the H-bonded and stacked associates of the adenine and thymine DNA bases: The nature of base stacking.  ...  The A•T base pair fixed at its planar MP2/6-311G(2df,pd) optimised structure. b The A•T base pair fully optimised in the presence of the water molecules.  ...  The internal optimisations were performed: one in which the internal coordinates of the base pair were frozen at the MP2/6-311G(2df,pd)-optimised geometry, and one in which all coordinates were fully optimised  ... 
doi:10.1080/00268970802060682 fatcat:vkgrrc4kdnerhj7drkmlhyiysm

The stereochemistry of a four-way DNA junction: a theoretical study

Eberhard von Kitzing, David M.J. Lilley, Stephan Diekmann
1990 Nucleic Acids Research  
A version of the AMBER program package was employed, that had been modified to include the influence of counterions and a global optimisation procedure.  ...  The calculations indicate distortions from standard B-DNA conformation that are required to adopt the stacked X-structure; a widening of the minor groove at the junction, and reorientation of the central  ...  Sebesse for his expert drawing of many of the figures. The Figures 7-9 were drawn by the SCHAKAL program written by E. Keller, University of Freiburg. We thank R.  ... 
doi:10.1093/nar/18.9.2671 pmid:2339056 pmcid:PMC330751 fatcat:ewl5k427cvgqjeajt4vzrbaqza

High-throughput cryo-EM structure determination of amyloids [article]

Sofia Lövestam, Sjors Scheres
2022 bioRxiv   pre-print
In order to develop relevant model systems for disease, and ultimately to better understand the molecular mechanisms of disease, it will be important to determine which factors determine the formation  ...  The formation of amyloid filaments is characteristic of various degenerative diseases.  ...  Darling and J. Grimmett for help with highperformance computing. This work was supported by the U.K. Medical Research Council (MC_UP_A025_1013, to S.H.W.S.).  ... 
doi:10.1101/2022.02.07.479378 fatcat:vwmndxc4s5hgdei3ctbarqbvki

A DFT study of 2-aminopurine-containing dinucleotides: prediction of stacked conformations with B-DNA structure

Darren A. Smith, Leo F. Holroyd, Tanja van Mourik, Anita C. Jones
2016 Physical Chemistry, Chemical Physics - PCCP  
DFT calculations predict base-stacked and base-flipped structures of 2-aminopurine-containing DNA dinucleotides.  ...  This work was supported by studentship funding from the Engineering and Physical Sciences Research Council Doctoral Training Account to DAS and LFH (EP/K503162/1); EaStCHEM, University of Edinburgh and  ...  The research data supporting this publication can be accessed at http://dx.doi.org/10.17630/45637538-1906-4c3c-83da-0ba6bb20d58b  ... 
doi:10.1039/c5cp07816d pmid:27186599 fatcat:zh7us6cjvnhmtpkauiqtzdyirq

ATLAS Phase-II-Upgrade Pixel data transmission development

M. Wensing
2017 Journal of Instrumentation  
The readout of the new pixel system will be most challenging in terms of data rate and readout speed.  ...  Due to radiation levels, the first part of transmission has to be implemented electrically. System simulation and test results of cable candidates will be presented.  ...  Acknowledgments I would like to acknowledge all the colleagues and institutes who contributed to this paper in terms of provided material and working on the achieved results on the various topics discussed  ... 
doi:10.1088/1748-0221/12/01/c01093 fatcat:xgd3lbx6szgf5foqxzc44n2i2u

Improved aerostructural performance via aeroservoelastic tailoring of a composite wing

Eduardo P. Krupa, Jonathan E. Cooper, Alberto Pirrera, Raj Nangia
2018 Aeronautical Journal  
This goal is achieved by optimising thickness and stiffness distributions of constitutive laminates, jig-twist shape and distributed control surface deflections through different segments of a nominal  ...  Optimised design solutions are found using a bi-level approach that integrates gradient-based and particle swarm optimisations in order to tailor structural properties at rib-bay level and retrieve blended  ...  Acknowledgments This research was supported by the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPQ), under the Science Without Borders programme.  ... 
doi:10.1017/aer.2018.66 fatcat:n45xrwi46fh37eksjhndwcioka
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