Signal Transmission Across Tile Assemblies: 3D Static Tiles Simulate Active Self-Assembly by 2D Signal-Passing Tiles

The 2-Handed Assembly Model (2HAM) is a tile-based self-assembly model in which, typically beginning from single tiles, arbitrarily large aggregations of static tiles combine in pairs to form structures. The Signal-passing Tile Assembly Model (STAM) is an extension of the 2HAM in which the tiles are dynamically changing components which are able to alter their binding domains as they bind together. For our first result, we demonstrate useful techniques and transformations for converting an arbitrarily complex STAM$^+$ tile set into an STAM$^+$ tile set where every tile has a constant, low amount of complexity, in terms of the number and types of ``signals'' they can send, with a trade off in scale factor. Using these simplifications, we prove that for each temperature $\tau>1$ there exists a 3D tile set in the 2HAM which is intrinsically universal for the class of all 2D STAM$^+$ systems at temperature $\tau$ (where the STAM$^+$ does not make use of the STAM's power of glue deactivation and assembly breaking, as the tile components of the 2HAM are static and unable to change or break bonds). This means that there is a single tile set $U$ in the 3D 2HAM which can, for an arbitrarily complex STAM$^+$ system $S$, be configured with a single input configuration which causes $U$ to exactly simulate $S$ at a scale factor dependent upon $S$. Furthermore, this simulation uses only two planes of the third dimension. This implies that there exists a 3D tile set at temperature $2$ in the 2HAM which is intrinsically universal for the class of all 2D STAM$^+$ systems at temperature $1$. Moreover, we show that for each temperature $\tau>1$ there exists an STAM$^+$ tile set which is intrinsically universal for the class of all 2D STAM$^+$ systems at temperature $\tau$, including the case where $\tau = 1$.Comment: A condensed version of this paper will appear in a special issue of Natural Computing for papers from DNA 19. This full version contains proofs not seen in the published versio

Chiral symmetry and quantum hadro-dynamics

Using the linear sigma model, we study the evolutions of the quark condensate and of the nucleon mass in the nuclear medium. Our formulation of the model allows the inclusion of both pion and scalar-isoscalar degrees of freedom. It guarantees that the low energy theorems and the constrains of chiral perturbation theory are respected. We show how this formalism incorporates quantum hadro-dynamics improved by the pion loops effects.Comment: 24 pages, 2 figure

Plasticity of visual attention in Isha yoga meditation practitioners before and after a 3-month retreat.

Meditation has lately received considerable interest from cognitive neuroscience. Studies suggest that daily meditation leads to long lasting attentional and neuronal plasticity. We present changes related to the attentional systems before and after a 3 month intensive meditation retreat. We used three behavioral psychophysical tests - a Stroop task, an attentional blink task, and a global-local letter task-to assess the effect of Isha yoga meditation on attentional resource allocation. 82 Isha yoga practitioners were tested at the beginning and at the end of the retreat. Our results showed an increase in correct responses specific to incongruent stimuli in the Stroop task. Congruently, a positive correlation between previous meditation experience and accuracy to incongruent Stroop stimuli was also observed at baseline. We also observed a reduction of the attentional blink. Unexpectedly, a negative correlation between previous meditation experience and attentional blink performance at baseline was observed. Regarding spatial attention orientation as assessed using the global-local letter task, participants showed a bias toward local processing. Only slight differences in performance were found pre- vs. post- meditation retreat. Biasing toward the local stimuli in the global-local task and negative correlation of previous meditation experience with attentional blink performance is consistent with Isha practices being focused-attention practices. Given the relatively small effect sizes and the absence of a control group, our results do not allow clear support nor rejection of the hypothesis of meditation-driven neuronal plasticity in the attentional system for Isha yoga practice

Engagement in a Community-Based Integral Practice Program Enhances Well-being

This project examined associations between engagement in a community-based integral practice program and measures of health and well-being. In this prospective withinsubjects uncontrolled cohort study, 53 participants of Integral Transformative Practice (ITP), a program that incorporates movement, nutritional and exercise recommendations, affirmations, contemplative introspection, theory and philosophy, and group discussions and activities, were followed over one year. Participants completed online questionnaires upon enrollment, at six months, and one year later. Repeated measures analyses showed that participants reported improved overall health and reduced symptoms of ill health, as well as increased psychological well-being, vitality, and quality of life over the course of the year. Greater involvement in the practice community predicted better psychological well-being, increased quality of life, and greater self-transcendence. Self-transcendence mediated the relationship between level of ITP involvement and psychological well-being outcomes, and predicted physical health outcomes, suggesting that this construct may be important to the effectiveness of participating in wellness interventions

Synthesis of hollow vaterite CaCO(3) microspheres in supercritical carbon dioxide medium

We here describe a rapid method for synthesizing hollow core, porous crystalline calcium carbonate microspheres composed of vaterite using supercritical carbon dioxide in aqueous media, without surfactants. We show that the reaction in alkaline media rapidly conducts to the formation of microspheres with an average diameter of 5 mu m. SEM, TEM and AFM observations reveal that the microspheres have a hollow core of around 0.7 mu m width and are composed of nanograins with an average diameter of 40 nm. These nanograins are responsible for the high specific surface area of 16 m(2) g(-1) deduced from nitrogen absorption/desorption isotherms, which moreover confers an important porosity to the microspheres. We believe this work may pave the way for the elaboration of a biomaterial with a large potential for therapeutic as well as diagnostic applications

Linac modeling for external beam radiotherapy quality assurance using a dedicated 2D pixelated detector

International audienceQuality assurance is a key issue in intensity modulated radiotherapy. Errors can occur in the dose delivery process induces significant differences between the planned treatment and the delivered one. In this context, the Medical Application Physics group of the LPSC is developing TraDeRa (Transparent Detector for Radiotherapy), a 2D pixelated matrix of ionization chambers located upstream to the patient. The signal map obtained with TraDeRa has to be processed to provide medical observables to quantify the quality of the treatment delivery. This relies on accurate Monte Carlo simulations benchmarked with measurements performed under a linear accelerator (Linac).The work described in this paper lies in the optimization of the Linac head simulation and the development of an innovative Monte Carlo/measurements comparison method to perform an accurate enough model of the X-ray production device. An optimized parametrization of the particles transport allowed an increase of the simulation efficiency by a factor 3. The characteristics of an electron beam of a reference Linac were matched with the simulation results by using dose deposition of the created X-ray beam in a water tank. Two parameters are particularly critical: the nominal energy of the electrons and the radial distribution of impact on the target. The innovative method was able to provide within minutes those two parameters for any Linac, achieving, for example, a 10 keV precision on the energy determination for a 6 MV operating Linac

Neutron production by cosmic-ray muons at shallow depth

The yield of neutrons produced by cosmic ray muons at a shallow depth of 32 meters of water equivalent has been measured. The Palo Verde neutrino detector, containing 11.3 tons of Gd loaded liquid scintillator and 3.5 tons of acrylic served as a target. The rate of one and two neutron captures was determined. Modeling the neutron capture efficiency allowed us to deduce the total yield of neutrons $Y_{tot} = (3.60 \pm 0.09 \pm 0.31) \times 10^{-5}$ neutrons per muon and g/cm$^2$. This yield is consistent with previous measurements at similar depths.Comment: 12 pages, 3 figure

A Markovian event-based framework for stochastic spiking neural networks

In spiking neural networks, the information is conveyed by the spike times, that depend on the intrinsic dynamics of each neuron, the input they receive and on the connections between neurons. In this article we study the Markovian nature of the sequence of spike times in stochastic neural networks, and in particular the ability to deduce from a spike train the next spike time, and therefore produce a description of the network activity only based on the spike times regardless of the membrane potential process. To study this question in a rigorous manner, we introduce and study an event-based description of networks of noisy integrate-and-fire neurons, i.e. that is based on the computation of the spike times. We show that the firing times of the neurons in the networks constitute a Markov chain, whose transition probability is related to the probability distribution of the interspike interval of the neurons in the network. In the cases where the Markovian model can be developed, the transition probability is explicitly derived in such classical cases of neural networks as the linear integrate-and-fire neuron models with excitatory and inhibitory interactions, for different types of synapses, possibly featuring noisy synaptic integration, transmission delays and absolute and relative refractory period. This covers most of the cases that have been investigated in the event-based description of spiking deterministic neural networks

The Coxsackievirus B 3Cpro Protease Cleaves MAVS and TRIF to Attenuate Host Type I Interferon and Apoptotic Signaling

The host innate immune response to viral infections often involves the activation of parallel pattern recognition receptor (PRR) pathways that converge on the induction of type I interferons (IFNs). Several viruses have evolved sophisticated mechanisms to attenuate antiviral host signaling by directly interfering with the activation and/or downstream signaling events associated with PRR signal propagation. Here we show that the 3Cpro cysteine protease of coxsackievirus B3 (CVB3) cleaves the innate immune adaptor molecules mitochondrial antiviral signaling protein (MAVS) and Toll/IL-1 receptor domain-containing adaptor inducing interferon-beta (TRIF) as a mechanism to escape host immunity. We found that MAVS and TRIF were cleaved in CVB3-infected cells in culture. CVB3-induced cleavage of MAVS and TRIF required the cysteine protease activity of 3Cpro, occurred at specific sites and within specialized domains of each molecule, and inhibited both the type I IFN and apoptotic signaling downstream of these adaptors. 3Cpro-mediated MAVS cleavage occurred within its proline-rich region, led to its relocalization from the mitochondrial membrane, and ablated its downstream signaling. We further show that 3Cpro cleaves both the N- and C-terminal domains of TRIF and localizes with TRIF to signalosome complexes within the cytoplasm. Taken together, these data show that CVB3 has evolved a mechanism to suppress host antiviral signal propagation by directly cleaving two key adaptor molecules associated with innate immune recognition