Automated self-assembly programming paradigm: The impact of network topology

2009 ◽  
Vol 24 (7) ◽  
pp. 793-817 ◽  
Author(s):  
Lin Li ◽  
Jonathan M Garibaldi ◽  
Natalio Krasnogor
Keyword(s):  
Network Topology ◽  
Self Assembly ◽  
Programming Paradigm ◽  
The Impact

scholarly journals Virus-Like Particles Produced Using the Brome Mosaic Virus Recombinant Capsid Protein Expressed in a Bacterial System

2021 ◽  
Vol 22 (6) ◽  
pp. 3098
Author(s):  
Aleksander Strugała ◽  
Jakub Jagielski ◽  
Karol Kamel ◽  
Grzegorz Nowaczyk ◽  
Marcin Radom ◽  
...  
Keyword(s):  
Ionic Strength ◽  
Mosaic Virus ◽  
Capsid Protein ◽  
Self Assembly ◽  
Environmental Changes ◽  
Expression System ◽  
Brome Mosaic Virus ◽  
Virus Like Particles ◽  
Assembly Principles ◽  
The Impact

Virus-like particles (VLPs), due to their nanoscale dimensions, presence of interior cavities, self-organization abilities and responsiveness to environmental changes, are of interest in the field of nanotechnology. Nevertheless, comprehensive knowledge of VLP self-assembly principles is incomplete. VLP formation is governed by two types of interactions: protein–cargo and protein–protein. These interactions can be modulated by the physicochemical properties of the surroundings. Here, we used brome mosaic virus (BMV) capsid protein produced in an E. coli expression system to study the impact of ionic strength, pH and encapsulated cargo on the assembly of VLPs and their features. We showed that empty VLP assembly strongly depends on pH whereas ionic strength of the buffer plays secondary but significant role. Comparison of VLPs containing tRNA and polystyrene sulfonic acid (PSS) revealed that the structured tRNA profoundly increases VLPs stability. We also designed and produced mutated BMV capsid proteins that formed VLPs showing altered diameters and stability compared to VLPs composed of unmodified proteins. We also observed that VLPs containing unstructured polyelectrolyte (PSS) adopt compact but not necessarily more stable structures. Thus, our methodology of VLP production allows for obtaining different VLP variants and their adjustment to the incorporated cargo.

Toward Online Control of Local Bifurcation in Power Systems via Network Topology Optimization

2015 ◽  
Vol 25 (12) ◽  
pp. 1550167
Author(s):  
Lei Wang ◽  
Hsiao-Dong Chiang
Keyword(s):  
Topology Optimization ◽  
Power Systems ◽  
Transmission Line ◽  
Network Topology ◽  
Online Control ◽  
Power Grids ◽  
Local Bifurcations ◽  
Network Topology Optimization ◽  
Online Methods ◽  
The Impact

This paper presents online methods for controlling local bifurcations of power grids with the goal of increasing bifurcation values (i.e. increasing load margins) via network topology optimization, a low-cost control. In other words, this paper presents online methods for increasing power transfer capability subject to static stability limit via switching transmission line out/in (i.e. disconnecting a transmission line or connecting a transmission line). To illustrate the impact of network topology on local bifurcations, two common local bifurcations, i.e. saddle-node bifurcation and structure-induced bifurcation on small power grids with different network topologies are shown. A three-stage online control methodology of local bifurcations via network topology optimization is presented to delay local bifurcations of power grids. Online methods must meet the challenging requirements of online applications such as the speed requirement (in the order of minutes), accuracy requirement and robustness requirement. The effectiveness of the three-stage methodology for online applications is demonstrated on the IEEE 118-bus and a 1648-bus practical power systems.

scholarly journals Effects of Pathological Mutations on the Prion-Like Polymerisation of MyD88

2018 ◽  
Author(s):  
Ailís O’Carroll ◽  
Brieuc Chauvin ◽  
James Brown ◽  
Ava Meagher ◽  
Joanne Coyle ◽  
...  
Keyword(s):  
Single Molecule ◽  
Self Assembly ◽  
Point Mutations ◽  
Adaptor Protein ◽  
Full Length ◽  
Binary Response ◽  
Death Domain ◽  
Tir Domain ◽  
The Impact

AbstractA novel concept has emerged whereby the higher-order self-assembly of proteins provides a simple and robust mechanism for signal amplification. This appears to be a universal signalling mechanism within the innate immune system, where the recognition of pathogens or danger-associated molecular patterns need to trigger a strong, binary response within cells. Previously, multiple structural studies have been limited to single domains, expressed and assembled at high protein concentrations. We therefore set out to develop new in vitro strategies to characterise the behaviour of full-length proteins at physiological levels. In this study we focus on the adaptor protein MyD88, which contains two domains with different self-assembly properties: a TIR domain that can polymerise similarly to the TIR domain of Mal, and a Death Domain that has been shown to oligomerise with helical symmetry in the Myddosome complex. To visualize the behaviour of full-length MyD88 without purification steps, we use single-molecule fluorescence coupled to eukaryotic cell-free protein expression. These experiments demonstrate that at low protein concentration, only full-length MyD88 forms prion-like polymers. We also demonstrate that the metastability of MyD88 polymerisation creates the perfect binary response required in innate signalling: the system is silenced at normal concentrations but upstream signalling creates a “seed” that triggers polymerisation and amplification of the response. These findings pushed us to re-interpret the role of polymerisation in MyD88-related diseases and we studied the impact of disease-associated point mutations L93P, R196C and L252P/L265P at the molecular level. We discovered that all mutations completely block the ability of MyD88 to polymerise. We also confirm that L252P, a gain-of-function mutation, allows the MyD88 mutant to form extremely stable oligomers, even when expressed at low nanomolar concentrations. Thus, our results are consistent with and greatly add to the findings on the Myddosomes digital ‘all-or-none’ responses and the behaviour of the oncogenic mutation of MyD88.

scholarly journals An Experimental Study to Evaluate the Impact of the Programming Paradigm in the Testing Activity

2012 ◽  
Vol 15 (1) ◽  
Author(s):  
Simone de Rocio Senger de Souza ◽  
Marllos Paiva Prado ◽  
Ellen Francine Barbosa ◽  
José Carlos Maldonado
Keyword(s):  
Experimental Study ◽  
Experimental Studies ◽  
Programming Paradigm ◽  
Time Restrictions ◽  
Activity Cost ◽  
The Cost ◽  
Programming Paradigms ◽  
The Impact ◽  
Initial Results ◽  
Testing Criteria

Several techniques and criteria are available to help conducting testing activity. The choice for one of them depends on different aspects, such as the time restrictions, ef- fectiveness of the testing criteria or the features of the program under test. In this context, the programming paradigm might influence in the testing activity cost. This paper presents the results of an experimental study to characterize and evaluate the cost and strength of structural and functional testing criteria, comparing object-oriented and procedural programming paradigms. A set of 32 programs from the data structure do- main was considered in this study. The main goals in the execution of this research were: i) to obtain initial results about the investigated questions; ii) to generate artifacts which can be used as basis to define and conduct further experimental studies; iii) to support training and teaching of software testing activity.

scholarly journals The Impact of the Network Topology on the Viral Prevalence: A Node-Based Approach

PLoS ONE ◽  
2015 ◽  
Vol 10 (7) ◽  
pp. e0134507 ◽  
Author(s):  
Lu-Xing Yang ◽  
Moez Draief ◽  
Xiaofan Yang
Keyword(s):  
Network Topology ◽  
The Impact

scholarly journals Size-Dependent Thermo- and Photoresponsive Plasmonic Properties of Liquid Crystalline Gold Nanoparticles

Materials ◽  
2020 ◽  
Vol 13 (4) ◽  
pp. 875
Author(s):  
Aleksander Promiński ◽  
Ewelina Tomczyk ◽  
Mateusz Pawlak ◽  
Agnieszka Jędrych ◽  
Józef Mieczkowski ◽  
...  
Keyword(s):  
Size Distribution ◽  
Long Range ◽  
Self Assembly ◽  
Liquid Crystalline ◽  
High Yield ◽  
Condensed State ◽  
Organic Shell ◽  
Yield Production ◽  
Shell Composition ◽  
The Impact

Achieving remotely controlled, reversibly reconfigurable assemblies of plasmonic nanoparticles is a prerequisite for the development of future photonic technologies. Here, we obtained a series of gold-nanoparticle-based materials which exhibit long-range order, and which are controlled with light or thermal stimuli. The influence of the metallic core size and organic shell composition on the switchability is considered, with emphasis on achieving light-responsive behavior at room temperature and high yield production of nanoparticles. The latter translates to a wide size distribution of metallic cores but does not prevent their assembly into various, switchable 3D and 2D long-range ordered structures. These results provide clear guidelines as to the impact of size, size distribution, and organic shell composition on self-assembly, thus enhancing the smart design process of multi-responsive nanomaterials in a condensed state, hardly attainable by other self-assembly methods which usually require solvents.

Self-Assembly of Cellulose in Super-Cooled Ionic Liquid under the Impact of Decelerated Antisolvent Infusion: An Approach toward Anisotropic Gels and Aerogels

2018 ◽  
Vol 19 (11) ◽  
pp. 4411-4422 ◽  
Author(s):  
Sven F. Plappert ◽  
Jean-Marie Nedelec ◽  
Harald Rennhofer ◽  
Helga C. Lichtenegger ◽  
Sigrid Bernstorff ◽  
...  
Keyword(s):  
Ionic Liquid ◽  
Self Assembly ◽  
The Impact
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