A Planck-scale axion and SU(2) Yang-Mills dynamics: Present acceleration and the fate of the photon

From the time of CMB decoupling onwards we investigate cosmological evolution subject to a strongly interacting SU(2) gauge theory of Yang-Mills scale $\Lambda\sim 10^{-4}$ eV (masquerading as the $U(1)_{Y}$ factor of the SM at present). The viability of this postulate is discussed in view of cosmological and (astro)particle physics bounds. The gauge theory is coupled to a spatially homogeneous and ultra-light (Planck-scale) axion field. As first pointed out by Frieman et al., such an axion is a viable candidate for quintessence, i.e. dynamical dark energy, being associated with today's cosmological acceleration. A prediction of an upper limit $\Delta t_{m_\gamma=0}$ for the duration of the epoch stretching from the present to the point where the photon starts to be Meissner massive is obtained: $\Delta t_{m_\gamma=0}\sim 2.2$ billion years.Comment: v3: consequences of an error in evolution equation for coupling rectified, only a minimal change in physics results, two refs. adde

Toward automatic comparison of visualization techniques: Application to graph visualization

Many end-user evaluations of data visualization techniques have been run during the last decades. Their results are cornerstones to build efficient visualization systems. However, designing such an evaluation is always complex and time-consuming and may end in a lack of statistical evidence and reproducibility. We believe that modern and efficient computer vision techniques, such as deep convolutional neural networks (CNNs), may help visualization researchers to build and/or adjust their evaluation hypothesis. The basis of our idea is to train machine learning models on several visualization techniques to solve a specific task. Our assumption is that it is possible to compare the efficiency of visualization techniques based on the performance of their corresponding model. As current machine learning models are not able to strictly reflect human capabilities, including their imperfections, such results should be interpreted with caution. However, we think that using machine learning-based pre-evaluation, as a pre-process of standard user evaluations, should help researchers to perform a more exhaustive study of their design space. Thus, it should improve their final user evaluation by providing it better test cases. In this paper, we present the results of two experiments we have conducted to assess how correlated the performance of users and computer vision techniques can be. That study compares two mainstream graph visualization techniques: node-link (\NL) and adjacency-matrix (\MD) diagrams. Using two well-known deep convolutional neural networks, we partially reproduced user evaluations from Ghoniem \textit{et al.} and from Okoe \textit{et al.}. These experiments showed that some user evaluation results can be reproduced automatically.Comment: 35 pages, 6 figures, 4 table

Phases of Dense Quarks at Large N_c

In the limit of a large number of colors, N_c, we suggest that gauge theories can exhibit several distinct phases at nonzero temperature and quark density. Two are familiar: a cold, dilute phase of confined hadrons, where the pressure is ~ 1, and a hot phase of deconfined quarks and gluons, with pressure ~ N_c^2. When the quark chemical potential mu ~ 1, the deconfining transition temperature, T_d, is independent of mu. For T < T_d, as mu increases above the mass threshold, baryons quickly form a dense phase where the pressure is ~ N_c. As illustrated by a Skyrme crystal, chiral symmetry can be both spontaneously broken, and then restored, in the dense phase. While the pressure is ~ N_c, like that of (non-ideal) quarks, the dense phase is still confined, with interactions near the Fermi surface those of baryons, and not of quarks. Thus in the chirally symmetric region, baryons near the Fermi surface are parity doubled. We suggest possible implications for the phase diagram of QCD.Comment: 23 pages, 2 figures, uses entcs macro. Minor changes in wordin

Intercalator conjugates of pyrimidine locked nucleic acid-modified triplex-forming oligonucleotides: improving DNA binding properties and reaching cellular activities

Triplex-forming oligonucleotides (TFOs) are powerful tools to interfere sequence-specifically with DNA-associated biological functions. (A/T,G)-containing TFOs are more commonly used in cells than (T,C)-containing TFOs, especially C-rich sequences; indeed the low intracellular stability of the non-covalent pyrimidine triplexes make the latter less active. In this work we studied the possibility to enhance DNA binding of (T,C)-containing TFOs, aiming to reach cellular activities; to this end, we used locked nucleic acid-modified TFOs (TFO/LNAs) in association with 5′-conjugation of an intercalating agent, an acridine derivative. In vitro a stable triplex was formed with the TFO-acridine conjugate: by SPR measurements at 37°C and neutral pH, the dissociation equilibrium constant was found in the nanomolar range and the triplex half-life ∼10 h (50-fold longer compared with the unconjugated TFO/LNA). Moreover to further understand DNA binding of (T,C)-containing TFO/LNAs, hybridization studies were performed at different pH values: triplex stabilization associated with pH decrease was mainly due to a slower dissociation process. Finally, biological activity of pyrimidine TFO/LNAs was evaluated in a cellular context: it occurred at concentrations ∼0.1 μM for acridine-conjugated TFO/LNA (or ∼2 μM for the unconjugated TFO/LNA) whereas the corresponding phosphodiester TFO was inactive, and it was demonstrated to be triplex-mediated

Psoralen interstrand cross-link repair is specifically altered by an adjacent triple-stranded structure

Targeting DNA-damaging agents to specific DNA sites by using sequence-specific DNA ligands has been successful in directing genomic modifications. The understanding of repair processing of such targeted damage and the influence of the adjacent complex is largely unknown. In this way, directed interstrand cross-links (ICLs) have already been generated by psoralen targeting. The mechanisms responsible for ICL removal are far from being understood in mammalian cells, with the proposed involvement of both mutagenic and recombinogenic pathways. Here, a unique ICL was introduced at a selected site by photoactivation of a psoralen moiety with the use of psoralen conjugates of triplex-forming oligonucleotides. The processing of psoralen ICL was evaluated in vitro and in cells for two types of cross-linked substrates, either containing a psoralen ICL alone or with an adjacent triple-stranded structure. We show that the presence of a neighbouring triplex structure interferes with different stages of psoralen ICL processing: (i) the ICL-induced DNA repair synthesis in HeLa cell extracts is inhibited by the triplex structure, as measured by the efficiency of ‘true’ and futile repair synthesis, stopping at the ICL site; (ii) in HeLa cells, the ICL removal via a nucleotide excision repair (NER) pathway is delayed in the presence of a neighbouring triplex; and (iii) the binding to ICL of recombinant xeroderma pigmentosum A protein, which is involved in pre-incision recruitment of NER factors is impaired by the presence of the third DNA strand. These data characterize triplex-induced modulation of ICL repair pathways at specific steps, which might have implications for the controlled induction of targeted genomic modifications and for the associated cellular responses