Search results for "Simulations"
showing 10 items of 288 documents
A Monte Carlo Study of Knots in Long Double-Stranded DNA Chains.
2016
We determine knotting probabilities and typical sizes of knots in double-stranded DNA for chains of up to half a million base pairs with computer simulations of a coarse-grained bead-stick model: Single trefoil knots and composite knots which include at least one trefoil as a prime factor are shown to be common in DNA chains exceeding 250,000 base pairs, assuming physiologically relevant salt conditions. The analysis is motivated by the emergence of DNA nanopore sequencing technology, as knots are a potential cause of erroneous nucleotide reads in nanopore sequencing devices and may severely limit read lengths in the foreseeable future. Even though our coarse-grained model is only based on …
The positioning system of the ANTARES Neutrino Telescope
2012
The ANTARES neutrino telescope, located 40km off the coast of Toulon in the Mediterranean Sea at a mooring depth of about 2475m, consists of twelve detection lines equipped typically with 25 storeys. Every storey carries three optical modules that detect Cherenkov light induced by charged secondary particles (typically muons) coming from neutrino interactions. As these lines are flexible structures fixed to the sea bed and held taut by a buoy, sea currents cause the lines to move and the storeys to rotate. The knowledge of the position of the optical modules with a precision better than 10cm is essential for a good reconstruction of particle tracks. In this paper the ANTARES positioning sys…
Power Quality Savings with Controlled Fault-Tolerant Power Converters
2011
Power quality is simply the interaction of electrical power with electrical equipments. If electrical equipments operate correctly and reliably without being damaged or stressed, a suitable level of power quality is assured. On the other hand, if the electrical equipment malfunctions, is unreliable, or is damaged during normal usage, power quality is poor and probably the economical loss could be preeminent over the technical one. In the scenario of the Distributed generation power quality issues will be more- over important because an higher dissemination of power conditioning equip- ment will be requested and this obviously will increase the sources of vulnera- bility for the electrical s…
Aprendizaje de los fundamentos de la probabilidad apoyado en las TICs
2012
La red puede utilizarse como una herramienta docente más en Estadística, ya que en ella se puede acceder a numerosos recursos que pueden incorporarse a la docencia. En este artículo se describe un proyecto de integración de las denominadas simulaciones interactivas en una de las ramas de la Estadística en las que se pueden emplear: la probabilidad. El uso de estos recursos permite al alumno aprender de su propia experiencia y visualizar los conceptos estadísticos, lo que contribuye a mejorar su proceso de aprendizaje.
A potential solution to avoid overdose of mixed drugs in the event of Covid-19: Nanomedicine at the heart of the Covid-19 pandemic.
2021
Since 2020, the world is facing the first global pandemic of 21st century. Among all the solutions proposed to treat this new strain of coronavirus, named SARS-CoV-2, the vaccine seems a promising way but the delays are too long to be implemented quickly. In the emergency, a dual therapy has shown its effectiveness but has also provoked a set of debates around the dangerousness of a particular molecule, hydroxychloroquine. In particular, the doses to be delivered, according to the studies, were well beyond the acceptable doses to support the treatment without side effects. We propose here to use all the advantages of nanovectorization to address this question of concentration. Using quantum…
Missing value imputation in proximity extension assay-based targeted proteomics data
2020
Targeted proteomics utilizing antibody-based proximity extension assays provides sensitive and highly specific quantifications of plasma protein levels. Multivariate analysis of this data is hampered by frequent missing values (random or left censored), calling for imputation approaches. While appropriate missing-value imputation methods exist, benchmarks of their performance in targeted proteomics data are lacking. Here, we assessed the performance of two methods for imputation of values missing completely at random, the previously top-benchmarked ‘missForest’ and the recently published ‘GSimp’ method. Evaluation was accomplished by comparing imputed with remeasured relative concentrations…
Charge-Neutral Constant pH Molecular Dynamics Simulations Using a Parsimonious Proton Buffer
2016
In constant pH molecular dynamics simulations, the protonation states of titratable sites can respond to changes of the pH and of their electrostatic environment. Consequently, the number of protons bound to the biomolecule, and therefore the overall charge of the system, fluctuates during the simulation. To avoid artifacts associated with a non-neutral simulation system, we introduce an approach to maintain neutrality of the simulation box in constant pH molecular dynamics simulations, while maintaining an accurate description of all protonation fluctuations. Specifically, we introduce a proton buffer that, like a buffer in experiment, can exchange protons with the biomolecule enabling its…
Elucidating the catalytic reaction mechanism of orotate phosphoribosyltransferase by means of X-ray crystallography and computational simulations
2020
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Light hadrons from lattice QCD with light (u, d), strange and charm dynamical quarks
2010
We present results of lattice QCD simulations with mass-degenerate up and down and mass-split strange and charm (N_f = 2+1+1) dynamical quarks using Wilson twisted mass fermions at maximal twist. The tuning of the strange and charm quark masses is performed at two values of the lattice spacing a~0.078 fm and a~0.086 fm with lattice sizes ranging from L~1.9 fm to L~2.8 fm. We measure with high statistical precision the light pseudoscalar mass m_PS and decay constant f_PS in a range 270 < m_PS < 510 MeV and determine the low energy parameters f_0, l_3 and l_4 of SU(2) chiral perturbation theory. We use the two values of the lattice spacing, several lattice sizes as well as different values of…
Additional Evidence for a Pulsar Wind Nebula in the Heart of SN 1987A from Multiepoch X-Ray Data and MHD Modeling
2022
Since the day of its explosion, supernova (SN) 1987A has been closely monitored to study its evolution and to detect its central compact relic. In fact, the formation of a neutron star is strongly supported by the detection of neutrinos from the SN. However, besides the detection in the Atacama Large Millimeter/submillimeter Array (ALMA) data of a feature that is compatible with the emission arising from a proto-pulsar wind nebula (PWN), the only hint for the existence of such elusive compact object is provided by the detection of hard emission in NuSTAR data up to ~ 20 keV. We report on the simultaneous analysis of multi-epoch observations of SN 1987A performed with Chandra, XMM-Newton and…