An Emergent Space for Distributed Data with Hidden Internal Order through Manifold Learning

Manifold-learning techniques are routinely used in mining complex spatiotemporal data to extract useful, parsimonious data representations/parametrizations; these are, in turn, useful in nonlinear model identification tasks. We focus here on the case of time series data that can ultimately be modelled as a spatially distributed system (e.g. a partial differential equation, PDE), but where we do not know the space in which this PDE should be formulated. Hence, even the spatial coordinates for the distributed system themselves need to be identified - to emerge from - the data mining process. We will first validate this emergent space reconstruction for time series sampled without space labels in known PDEs; this brings up the issue of observability of physical space from temporal observation data, and the transition from spatially resolved to lumped (order-parameter-based) representations by tuning the scale of the data mining kernels. We will then present actual emergent space discovery illustrations. Our illustrative examples include chimera states (states of coexisting coherent and incoherent dynamics), and chaotic as well as quasiperiodic spatiotemporal dynamics, arising in partial differential equations and/or in heterogeneous networks. We also discuss how data-driven spatial coordinates can be extracted in ways invariant to the nature of the measuring instrument. Such gauge-invariant data mining can go beyond the fusion of heterogeneous observations of the same system, to the possible matching of apparently different systems

Molecular van der Waals fluids in cavity quantum electrodynamics

Intermolecular van der Waals interactions are central to chemical and physical phenomena ranging from biomolecule binding to soft-matter phase transitions. However, there are currently very limited approaches to manipulate van der Waals interactions. In this work, we demonstrate that strong light-matter coupling can be used to tune van der Waals interactions, and, thus, control the thermodynamic properties of many-molecule systems. Our analysis reveals orientation-dependent intermolecular interactions between van der Waals molecules (for example, H2) that depend on the distance between the molecules R as R−3 and R0. Moreover, we employ non-perturbative \textit{ab initio} cavity quantum electrodynamics calculations to develop machine learning-based van der Waals interaction potentials for molecules inside optical cavities. By simulating fluids of up to 1,000 H2 molecules, we demonstrate that strong light-matter coupling can tune the structural and thermodynamic properties of molecular fluids. In particular, we observe collective orientational order in many-molecule systems as a result of cavity-modified van der Waals interactions. These simulations and analyses demonstrate both local and collective effects induced by strong light-matter coupling and open new paths for controlling the properties of condensed phase systems

Effects of glycerol and creatine hyperhydration on doping-relevant blood parameters

Glycerol is prohibited as an ergogenic aid by the World Anti-Doping Agency (WADA) due to the potential for its plasma expansion properties to have masking effects. However, the scientific basis of the inclusion of Gly as a “masking agent” remains inconclusive. The purpose of this study was to determine the effects of a hyperhydrating supplement containing Gly on doping-relevant blood parameters. Nine trained males ingested a hyperhydrating mixture twice per day for 7 days containing 1.0 g•kg<sup>−1</sup> body mass (BM) of Gly, 10.0 g of creatine and 75.0 g of glucose. Blood samples were collected and total hemoglobin (Hb) mass determined using the optimized carbon monoxide (CO) rebreathing method pre- and post-supplementation. BM and total body water (TBW) increased significantly following supplementation by 1.1 ± 1.2 and 1.0 ± 1.2 L (BM, P < 0.01; TBW, P < 0.01), respectively. This hyperhydration did not significantly alter plasma volume or any of the doping-relevant blood parameters (e.g., hematocrit, Hb, reticulocytes and total Hb-mass) even when Gly was clearly detectable in urine samples. In conclusion, this study shows that supplementation with hyperhydrating solution containing Gly for 7 days does not significantly alter doping-relevant blood parameters

Molecular van der Waals fluids in cavity quantum electrodynamics

Intermolecular van der Waals interactions are central to chemical and physical phenomena ranging from biomolecule binding to soft-matter phase transitions. However, there are currently very limited approaches to manipulate van der Waals interactions. In this work, we demonstrate that strong light-matter coupling can be used to tune van der Waals interactions, and, thus, control the thermodynamic properties of many-molecule systems. Our analysis reveals orientation-dependent intermolecular interactions between van der Waals molecules (for example, H$_{2}$) that depend on the distance between the molecules $R$ as $R^{-3}$ and $R^{0}$. Moreover, we employ non-perturbative \textit{ab initio} cavity quantum electrodynamics calculations to develop machine learning-based van der Waals interaction potentials for molecules inside optical cavities. By simulating fluids of up to $1,000$ H$_{2}$ molecules, we demonstrate that strong light-matter coupling can tune the structural and thermodynamic properties of molecular fluids. In particular, we observe collective orientational order in many-molecule systems as a result of cavity-modified van der Waals interactions. These simulations and analyses demonstrate both local and collective effects induced by strong light-matter coupling and open new paths for controlling the properties of condensed phase systems.Comment: 6 pages and 3 figures in main text - 15 pages and 12 figures supplemental materia

Effect of substrate thermal resistance on space-domain microchannel

In recent years, Fluorescent Melting Curve Analysis (FMCA) has become an almost ubiquitous feature of commercial quantitative PCR (qPCR) thermal cyclers. Here a micro-fluidic device is presented capable of performing FMCA within a microchannel. The device consists of modular thermally conductive blocks which can sandwich a microfluidic substrate. Opposing ends of the blocks are held at differing temperatures and a linear thermal gradient is generated along the microfluidic channel. Fluorescent measurements taken from a sample as it passes along the micro-fluidic channel permits fluorescent melting curves to be generated. In this study we measure DNA melting temperature from two plasmid fragments. The effects of flow velocity and ramp-rate are investigated, and measured melting curves are compared to those acquired from a commercially available PCR thermocycler

Comparing individual and population measures of senescence across 10 years in a wild insect population

Acknowledgements We thank L. Rodrıguez and M.C. Munoz for unconditional support,providing access to facilities including the WildCrickets study meadow.The following people contributed to video processing and data recording:Thor Veen, Carlos Rodrıguez del Valle, Alan Rees, Hannah Hudson,Jasmine Jenkin, Lauren Morse, Emma Rogan, Emelia Hiorns, Sarah Cal-low, Jamie Barnes, Chloe Mnatzaganian, Olivia Pearson, Adele James,Robin Brown, Chris Shipway, Luke Meadows and Peter Efstratiou. We also thank www.icode.co.uk for modifications to their i-catcher video recording package to optimize it for behavioral research. Michael Briga,Fernando Colchero, Dan Nussey, Andy Young, and Thor Veen made very useful comments on preliminary versions of the manuscript, and Jon Slate has been a constant partner in the development of the project. Comments from Jean-Michel Gaillard and Felix Zajitschek represented an important contribution to improve the manuscript. This work was supported bythe Natural Environment Research Council (NERC); standard grants:NE/E005403/1, NE/H02364X/1, NE/L003635/1, NE/R000328/1, andstudentships: NE/H02249X/1 (Fisher) and NE/L003635/1 (Skicko), the Leverhulme Trust and the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement CONSENT. 792215 (Boonekamp)Peer reviewedPublisher PD

Proton Motive Force-Dependent Hoechst 33342 Transport by the ABC Transporter LmrA of Lactococcus lactis

The fluorescent compound Hoechst 33342 is a substrate for many multidrug resistance (MDR) transporters and is widely used to characterize their transport activity. We have constructed mutants of the adenosine triphosphate (ATP) binding cassette (ABC)-type MDR transporter LmrA of Lactococcus lactis that are defective in ATP hydrolysis. These mutants and wild-type LmrA exhibited an atypical behavior in the Hoechst 33342 transport assay. In membrane vesicles, Hoechst 33342 transport was shown to be independent of the ATPase activity of LmrA, and it was not inhibited by orthovanadate but sensitive to uncouplers that collapse the proton gradient and to N,N'-dicyclohexylcarbodiimide, an inhibitor of the F0F1-ATPase. In contrast, transport of Hoechst 33342 by the homologous, heterodimeric MDR transporter LmrCD showed a normal ATP dependence and was insensitive to uncouplers of the proton gradient. With intact cells, expression of LmrA resulted in an increased rate of Hoechst 33342 influx while LmrCD caused a decrease in the rate of Hoechst 33342 influx. Cellular toxicity assays using a triple knockout strain, i.e., L. lactis ΔlmrA ΔlmrCD, demonstrate that expression of LmrCD protects cells against the growth inhibitory effects of Hoechst 33342, while in the presence of LmrA, cells are more susceptible to Hoechst 33342. Our data demonstrate that the LmrA-mediated Hoechst 33342 transport in membrane vesicles is influenced by the transmembrane pH gradient due to a pH-dependent partitioning of Hoechst 33342 into the membrane.