7,768 research outputs found
Multilayered lipid membrane stacks for biocatalysis using membrane enzymes
Multilayered or stacked lipid membranes are a common principle in biology and have various functional advantages compared to single lipid membranes, such as their ability to spatially organize processes, compartmentalize molecules and greatly increase surface area and hence membrane protein concentration. Here we report on a supramolecular assembly of a multilayered lipid membrane system in which poly-L-lysine electrostatically links negatively charged lipid membranes. When suitable membrane enzymes are incorporated, either an ubiquinol oxidase (cytochrome bo3 from Escherichia coli) or an oxygen tolerant hydrogenase (the membrane-bound hydrogenase from Ralstonia eutropha), cyclic voltammetry (CV) reveals a linear increase in biocatalytic activity with each additional membrane layer. Electron transfer between the enzymes and the electrode is mediated by the quinone pool that is present in the lipid phase. We deduce by atomic force microscopy, CV and fluorescence microscopy that quinones are able to diffuse between the stacked lipid membrane layers via defect sites where the lipid membranes are interconnected. This assembly is akin to that of interconnected thylakoid membranes or the folded lamella of mitochondria and have significant potential for mimicry in biotechnology applications such as energy production or biosensing
Current Profiles of Molecular Nanowires; DFT Green Function Representation
The Liouville-space Green function formalism is used to compute the current
density profile across a single molecule attached to electrodes. Time ordering
is maintained in real, physical, time, avoiding the use of artificial time
loops and backward propagations. Closed expressions for molecular currents,
which only require DFT calculations for the isolated molecule, are derived to
fourth order in the molecule/electrode coupling.Comment: 21 page
Knot Theory: from Fox 3-colorings of links to Yang-Baxter homology and Khovanov homology
This paper is an extended account of my "Introductory Plenary talk at Knots
in Hellas 2016" conference We start from the short introduction to Knot Theory
from the historical perspective, starting from Heraclas text (the first century
AD), mentioning R.Llull (1232-1315), A.Kircher (1602-1680), Leibniz idea of
Geometria Situs (1679), and J.B.Listing (student of Gauss) work of 1847. We
spend some space on Ralph H. Fox (1913-1973) elementary introduction to diagram
colorings (1956). In the second section we describe how Fox work was
generalized to distributive colorings (racks and quandles) and eventually in
the work of Jones and Turaev to link invariants via Yang-Baxter operators, here
the importance of statistical mechanics to topology will be mentioned. Finally
we describe recent developments which started with Mikhail Khovanov work on
categorification of the Jones polynomial. By analogy to Khovanov homology we
build homology of distributive structures (including homology of Fox colorings)
and generalize it to homology of Yang-Baxter operators. We speculate, with
supporting evidence, on co-cycle invariants of knots coming from Yang-Baxter
homology. Here the work of Fenn-Rourke-Sanderson (geometric realization of
pre-cubic sets of link diagrams) and Carter-Kamada-Saito (co-cycle invariants
of links) will be discussed and expanded.
Dedicated to Lou Kauffman for his 70th birthday.Comment: 35 pages, 31 figures, for Knots in Hellas II Proceedings, Springer,
part of the series Proceedings in Mathematics & Statistics (PROMS
Power Spectra for Cold Dark Matter and its Variants
The bulk of recent cosmological research has focused on the adiabatic cold
dark matter model and its simple extensions. Here we present an accurate
fitting formula that describes the matter transfer functions of all common
variants, including mixed dark matter models. The result is a function of
wavenumber, time, and six cosmological parameters: the massive neutrino
density, number of neutrino species degenerate in mass, baryon density, Hubble
constant, cosmological constant, and spatial curvature. We show how
observational constraints---e.g. the shape of the power spectrum, the abundance
of clusters and damped Lyman-alpha systems, and the properties of the
Lyman-alpha forest--- can be extended to a wide range of cosmologies, including
variations in the neutrino and baryon fractions in both high-density and
low-density universes.Comment: 20 pages, LaTeX, 4 figures. Submitted to ApJ. Electronic versions of
the fitting formula, as well as simple codes to output cosmological
quantities (e.g. sigma_8) as a function of parameters and illustrative
animations of parameter dependence, are available at
http://www.sns.ias.edu/~whu/transfer/transfer.htm
Syntactic Markovian Bisimulation for Chemical Reaction Networks
In chemical reaction networks (CRNs) with stochastic semantics based on
continuous-time Markov chains (CTMCs), the typically large populations of
species cause combinatorially large state spaces. This makes the analysis very
difficult in practice and represents the major bottleneck for the applicability
of minimization techniques based, for instance, on lumpability. In this paper
we present syntactic Markovian bisimulation (SMB), a notion of bisimulation
developed in the Larsen-Skou style of probabilistic bisimulation, defined over
the structure of a CRN rather than over its underlying CTMC. SMB identifies a
lumpable partition of the CTMC state space a priori, in the sense that it is an
equivalence relation over species implying that two CTMC states are lumpable
when they are invariant with respect to the total population of species within
the same equivalence class. We develop an efficient partition-refinement
algorithm which computes the largest SMB of a CRN in polynomial time in the
number of species and reactions. We also provide an algorithm for obtaining a
quotient network from an SMB that induces the lumped CTMC directly, thus
avoiding the generation of the state space of the original CRN altogether. In
practice, we show that SMB allows significant reductions in a number of models
from the literature. Finally, we study SMB with respect to the deterministic
semantics of CRNs based on ordinary differential equations (ODEs), where each
equation gives the time-course evolution of the concentration of a species. SMB
implies forward CRN bisimulation, a recently developed behavioral notion of
equivalence for the ODE semantics, in an analogous sense: it yields a smaller
ODE system that keeps track of the sums of the solutions for equivalent
species.Comment: Extended version (with proofs), of the corresponding paper published
at KimFest 2017 (http://kimfest.cs.aau.dk/
Bio-inspired Attentive Segmentation of Retinal OCT Imaging
Albeit optical coherence imaging (OCT) is widely used to assess ophthalmic pathologies, localization of intra-retinal boundaries suffers from erroneous segmentations due to image artifacts or topological abnormalities. Although deep learning-based methods have been effectively applied in OCT imaging, accurate automated layer segmentation remains a challenging task, with the flexibility and precision of most methods being highly constrained. In this paper, we propose a novel method to segment all retinal layers, tailored to the bio-topological OCT geometry. In addition to traditional learning of shift-invariant features, our method learns in selected pixels horizontally and vertically, exploiting the orientation of the extracted features. In this way, the most discriminative retinal features are generated in a robust manner, while long-range pixel dependencies across spatial locations are efficiently captured. To validate the effectiveness and generalisation of our method, we implement three sets of networks based on different backbone models. Results on three independent studies show that our methodology consistently produces more accurate segmentations than state-of-the-art networks, and shows better precision and agreement with ground truth. Thus, our method not only improves segmentation, but also enhances the statistical power of clinical trials with layer thickness change outcomes
Prospects for at CERN in NA62
The NA62 experiment will begin taking data in 2015. Its primary purpose is a
10% measurement of the branching ratio of the ultrarare kaon decay , using the decay in flight of kaons in an unseparated
beam with momentum 75 GeV/c.The detector and analysis technique are described
here.Comment: 8 pages for proceedings of 50 Years of CP
Variable pulmonary manifestations in Chitayat syndrome: Six additional affected individuals
Hand hyperphalangism leading to shortened index fingers with ulnar deviation, hallux valgus, mild facial dysmorphism and respiratory compromise requiring assisted ventilation are the key features of Chitayat syndrome. This condition results from the recurrent heterozygous missense variant NM_006494.2:c.266A>G; p.(Tyr89Cys) in ERF on chromosome 19q13.2, encoding the ETS2 repressor factor (ERF) protein. The pathomechanism of Chitayat syndrome is unknown. To date, seven individuals with Chitayat syndrome and the recurrent pathogenic ERF variant have been reported in the literature. Here, we describe six additional individuals, among them only one presenting with a history of assisted ventilation, and the remaining presenting with variable pulmonary phenotypes, including one individual without any obvious pulmonary manifestations. Our findings widen the phenotype spectrum caused by the recurrent pathogenic variant in ERF, underline Chitayat syndrome as a cause of isolated skeletal malformations and therefore contribute to the improvement of diagnostic strategies in individuals with hand hyperphalangism
Action Without Awareness: Reaching to an Object You Do Not Remember Seeing
BACKGROUND: Previous work by our group has shown that the scaling of reach trajectories to target size is independent of obligatory awareness of that target property and that "action without awareness" can persist for up to 2000 ms of visual delay. In the present investigation we sought to determine if the ability to scale reaching trajectories to target size following a delay is related to the pre-computing of movement parameters during initial stimulus presentation or the maintenance of a sensory (i.e., visual) representation for on-demand response parameterization. METHODOLOGY/PRINCIPAL FINDINGS: Participants completed immediate or delayed (i.e., 2000 ms) perceptual reports and reaching responses to different sized targets under non-masked and masked target conditions. For the reaching task, the limb associated with a trial (i.e., left or right) was not specified until the time of response cuing: a manipulation that prevented participants from pre-computing the effector-related parameters of their response. In terms of the immediate and delayed perceptual tasks, target size was accurately reported during non-masked trials; however, for masked trials only a chance level of accuracy was observed. For the immediate and delayed reaching tasks, movement time as well as other temporal kinematic measures (e.g., times to peak acceleration, velocity and deceleration) increased in relation to decreasing target size across non-masked and masked trials. CONCLUSIONS/SIGNIFICANCE: Our results demonstrate that speed-accuracy relations were observed regardless of whether participants were aware (i.e., non-masked trials) or unaware (i.e., masked trials) of target size. Moreover, the equivalent scaling of immediate and delayed reaches during masked trials indicates that a persistent sensory-based representation supports the unconscious and metrical scaling of memory-guided reaching
Correction: Zika virus-derived e-diii protein displayed on immunologically optimized vlps induces neutralizing antibodies without causing enhancement of dengue virus infection. vaccines 2019, 7, 72
The authors wish to make the following correction to their paper [1]. The same image was mistakenly selected for Figures 2 and 3. The image became replaced as you see in Figure 3 below
- …