Université de Technologie de Compiègne

We consider the problem of embedding entities and relationships of multi-relational data in low-dimensional vector spaces. Our objective is to propose a canonical model which is easy to train, contains a reduced number of parameters and can scale up to very large databases. Hence, we propose TransE, a method which models relationships by interpreting them as translations operating on the low-dimensional embeddings of the entities. Despite its simplicity, this assump-tion proves to be powerful since extensive experiments show that TransE signif-icantly outperforms state-of-the-art methods in link prediction on two knowledge bases. Besides, it can be successfully trained on a large scale data set with 1M entities, 25k relationships and more than 17M training samples. 1

MDAnalysis (http://mdanalysis.org) is a library for structural and temporal analysis of molecular dynamics (MD) simulation trajectories and individual protein structures. MD simulations of biological molecules have become an important tool to elucidate the relationship between molecular structure and physiological function. Simulations are performed with highly optimized software packages on HPC resources but most codes generate output trajectories in their own formats so that the development of new trajectory analysis algorithms is confined to specific user communities and widespread adoption and further development is delayed. MDAnalysis addresses this problem by abstracting access to the raw simulation data and presenting a uniform object-oriented Python interface to the user. It thus enables users to rapidly write code that is portable and immediately usable in virtually all biomolecular simulation communities. The user interface and modular design work equally well in complex scripted work flows, as foundations for other packages, and for interactive and rapid prototyping work in IPython / Jupyter notebooks, especially together with molecular visualization provided by nglview and time series analysis with pandas. MDAnalysis is written in Python and Cython and uses NumPy arrays for easy interoperability with the wider scientific Python ecosystem. It is widely used and forms the foundation for more specialized biomolecular simulation tools.

We propose an assessing method of mixture model in a cluster analysis setting with integrated completed likelihood. For this purpose, the observed data are assigned to unknown clusters using a maximum a posteriori operator. Then, the integrated completed likelihood (ICL) is approximated using the Bayesian information criterion (BIC). Numerical experiments on simulated and real data of the resulting ICL criterion show that it performs well both for choosing a mixture model and a relevant number of clusters. In particular, ICL appears to be more robust than BIC to violation of some of the mixture model assumptions and it can select a number of dusters leading to a sensible partitioning of the data.

The proapoptotic Bax protein induces cell death by acting on mitochondria. Bax binds to the permeability transition pore complex (PTPC), a composite proteaceous channel that is involved in the regulation of mitochondrial membrane permeability. Immunodepletion of Bax from PTPC or purification of PTPC from Bax-deficient mice yielded a PTPC that could not permeabilize membranes in response to atractyloside, a proapoptotic ligand of the adenine nucleotide translocator (ANT). Bax and ANT coimmunoprecipitated and interacted in the yeast two-hybrid system. Ectopic expression of Bax induced cell death in wild-type but not in ANT-deficient yeast. Recombinant Bax and purified ANT, but neither of them alone, efficiently formed atractyloside-responsive channels in artificial membranes. Hence, the proapoptotic molecule Bax and the constitutive mitochondrial protein ANT cooperate within the PTPC to increase mitochondrial membrane permeability and to trigger cell death.

This paper reviews ultrasound segmentation paper methods, in a broad sense, focusing on techniques developed for medical B-mode ultrasound images. First, we present a review of articles by clinical application to highlight the approaches that have been investigated and degree of validation that has been done in different clinical domains. Then, we present a classification of methodology in terms of use of prior information. We conclude by selecting ten papers which have presented original ideas that have demonstrated particular clinical usefulness or potential specific to the ultrasound segmentation problem.

In this paper, the problem of classifying an unseen pattern on the basis of its nearest neighbors in a recorded data set is addressed from the point of view of Dempster-Shafer theory. Each neighbor of a sample to be classified is considered as an item of evidence that supports certain hypotheses regarding the class membership of that pattern. The degree of support is defined as a function of the distance between the two vectors. The evidence of the k nearest neighbors is then pooled by means of Dempster's rule of combination. This approach provides a global treatment of such issues as ambiguity and distance rejection, and imperfect knowledge regarding the class membership of training patterns. The effectiveness of this classification scheme as compared to the voting and distance-weighted k-NN procedures is demonstrated using several sets of simulated and real-world data.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>

This article presents a vision for future unmanned aerial vehicles (UAV)-assisted disaster management, considering the holistic functions of disaster prediction, assessment, and response. Here, UAVs not only survey the affected area but also assist in establishing vital wireless communication links between the survivors and nearest available cellular infrastructure. A perspective of different classes of geophysical, climate-induced, and meteorological disasters based on the extent of interaction between the UAV and terrestrially deployed wireless sensors is presented in this work, with suitable network architectures designed for each of these cases. The authors outline unique research challenges and possible solutions for maintaining connected aerial meshes for handoff between UAVs and for systems-specific, security- and energy-related issues. This article is part of a special issue on drones.

A new approach is presented for analysis of microplastics in environmental samples, based on selective fluorescent staining using Nile Red (NR), followed by density-based extraction and filtration. The dye adsorbs onto plastic surfaces and renders them fluorescent when irradiated with blue light. Fluorescence emission is detected using simple photography through an orange filter. Image-analysis allows fluorescent particles to be identified and counted. Magnified images can be recorded and tiled to cover the whole filter area, allowing particles down to a few micrometres to be detected. The solvatochromic nature of Nile Red also offers the possibility of plastic categorisation based on surface polarity characteristics of identified particles. This article details the development of this staining method and its initial cross-validation by comparison with infrared (IR) microscopy. Microplastics of different sizes could be detected and counted in marine sediment samples. The fluorescence staining identified the same particles as those found by scanning a filter area with IR-microscopy.

Anodization of titanium and its alloys is an important surface treatment, especially for adhesion applications, but is not as well studied as for aluminium alloys. This paper deals with the morphological, structural and physicochemical characterization of anodic oxide films grown on titanium and Ti–6Al–4V (TA6V) in chromic acid solution without (CA) or with (CA/HF) hydrofluoric acid addition. Several investigations methods are used: high-resolution scanning electron microscopy (HR-SEM), reflection high-energy electron diffraction (RHEED), x-ray photoelectron spectroscopy (XPS), secondary ion mass spectrometry (SIMS), nuclear reaction analysis (NRA) and wetting angle measurements. The occurrence and morphology of the nanoporous structure for CA/HF anodization are described. The compact films grown in CA solution are amorphous and the porous films grown in the CA/HF solution are partially crystalline. The thickness and morphology of the films are described and discussed as a function of the anodizing conditions and of the composition of the underlying substrate. The composition of the film appears to be TiO2+Al2O3 (with Ti/Al atomic ratio ∽5), with incorporation of fluorine from the solution in the porous films and of small quantities of vanadium in the films that are grown. The specific role played by the Cr(VI) and F species on the film growth-and-dissolution formation process is discussed and a growth mechanism is proposed. Copyright © 1999 John Wiley & Sons, Ltd.

Abstract An assessment of flat triangular plate bending elements with displacement degrees‐of‐freedom at the three corner nodes only is presented, with the purpose of identifying the most effective for thin plate analysis. Based on a review of currently available elements, specific attention is given to the theoretical and numerical evaluation of three triangular 9 degrees‐of‐freedom elements; namely, a discrete Kirchhoff theory (DKT) element, a hybrid stress model (HSM) element and a selective reduced integration (SRI) element. New and efficient formulations of these elements are discussed in detail and the results of several example analyses are given. It is concluded that the most efficient and reliable three‐node plate bending elements are the DKT and HSM elements.

In this paper, we propose a branch and bound method for solving the job-shop problem. It is based on one-machine scheduling problems and is made more efficient by several propositions which limit the search tree by using immediate selections. It solved for the first time the famous 10 × 10 job-shop problem proposed by Muth and Thompson in 1963.

Cell adhesion and spreading of chick embryo vascular and corneal explants grown on rough and smooth poly (methyl methacrylate) (PMMA) were analyzed to test the cell response specificity to substratum surface properties. Different degrees of roughness were obtained by sand-blasting PMMA with alumina grains. Hydrophilic and hydrophobic components of the surface free energy (SFE) were calculated according to Good-van Oss's model. Contact angles were determined using a computerized angle meter. The apolar component of the SFE gamma s(LW), increased with a slight roughness whereas the basic component, gamma s-, decreased. The acido-basic properties disappeared as roughness increased. Incubation of PMMA in culture medium, performed to test the influence if the biological environment, allowed surface adsorption of medium proteins which annihilated roughness effect and restored hydrophilic properties. An organotypic culture assay was carried out in an attempt to relate the biocompatibility to substratum surface state. Cell migration was calculated from the area of cell layer. Cellular adhesion was determined by measuring the kinetic of release of enzymatically dissociated cells. A slight roughness raised the migration are to an upper extent no matter which cell type. Enhancement of the cell adhesion potential was related to the degree of roughness and the hydrophobicity.

The barrier function of mitochondrial membranes is perturbed early during the apoptotic process. Here we show that the mitochondria contain a caspase-like enzymatic activity cleaving the caspase substrate Z-VAD.afc, in addition to three biological activities previously suggested to participate in the apoptotic process: (a) cytochrome c; (b) an apoptosis-inducing factor (AIF) which causes isolated nuclei to undergo apoptosis in vitro; and (c) a DNAse activity. All of these factors, which are biochemically distinct, are released upon opening of the permeability transition (PT) pore in a coordinate, Bcl-2-inhibitable fashion. Caspase inhibitors fully neutralize the Z-VAD.afc-cleaving activity, have a limited effect on the AIF activity, and have no effect at all on the DNase activities. Purification of proteins reacting with the biotinylated caspase substrate Z-VAD, immunodetection, and immunodepletion experiments reveal the presence of procaspase-2 and -9 in mitochondria. Upon induction of PT pore opening, these procaspases are released from purified mitochondria and become activated. Similarly, upon induction of apoptosis, both procaspases redistribute from the mitochondrion to the cytosol and are processed to generate enzymatically active caspases. This redistribution is inhibited by Bcl-2. Recombinant caspase-2 and -9 suffice to provoke full-blown apoptosis upon microinjection into cells. Altogether, these data suggest that caspase-2 and -9 zymogens are essentially localized in mitochondria and that the disruption of the outer mitochondrial membrane occurring early during apoptosis may be critical for their subcellular redistribution and activation.

In this paper, we present a controller design and its implementation on a mini rotorcraft having four rotors. The dynamic model of the four-rotor rotorcraft is obtained via a Lagrange approach. The proposed controller is based on Lyapunov analysis using a nested saturation algorithm. The global stability analysis of the closed-loop system is presented. Real-time experiments show that the controller is able to perform autonomously the tasks of taking off, hovering, and landing.

This paper gives a broad overview of the stability and control of time-delay systems. Emphasis is on the more recent progress and engineering applications. Examples of practical problems, mathematical descriptions, stability and performance analysis, and feedback control are discussed.

Nowadays, there is a trend to design complex, yet secure systems. In this context, the Trusted Execution Environment (TEE) was designed to enrich the previously defined trusted platforms. TEE is commonly known as an isolated processing environment in which applications can be securely executed irrespective of the rest of the system. However, TEE still lacks a precise definition as well as representative building blocks that systematize its design. Existing definitions of TEE are largely inconsistent and unspecific, which leads to confusion in the use of the term and its differentiation from related concepts, such as secure execution environment (SEE). In this paper, we propose a precise definition of TEE and analyze its core properties. Furthermore, we discuss important concepts related to TEE, such as trust and formal verification. We give a short survey on the existing academic and industrial ARM TrustZone-based TEE, and compare them using our proposed definition. Finally, we discuss some known attacks on deployed TEE as well as its wide use to guarantee security in diverse applications.

The 7th amendment to the EU Cosmetics Directive prohibits to put animal-tested cosmetics on the market in Europe after 2013. In that context, the European Commission invited stakeholder bodies (industry, non-governmental organisations, EU Member States, and the Commission's Scientific Committee on Consumer Safety) to identify scientific experts in five toxicological areas, i.e. toxicokinetics, repeated dose toxicity, carcinogenicity, skin sensitisation, and reproductive toxicity for which the Directive foresees that the 2013 deadline could be further extended in case alternative and validated methods would not be available in time. The selected experts were asked to analyse the status and prospects of alternative methods and to provide a scientifically sound estimate of the time necessary to achieve full replacement of animal testing. In summary, the experts confirmed that it will take at least another 7-9 years for the replacement of the current in vivo animal tests used for the safety assessment of cosmetic ingredients for skin sensitisation. However, the experts were also of the opinion that alternative methods may be able to give hazard information, i.e. to differentiate between sensitisers and non-sensitisers, ahead of 2017. This would, however, not provide the complete picture of what is a safe exposure because the relative potency of a sensitiser would not be known. For toxicokinetics, the timeframe was 5-7 years to develop the models still lacking to predict lung absorption and renal/biliary excretion, and even longer to integrate the methods to fully replace the animal toxicokinetic models. For the systemic toxicological endpoints of repeated dose toxicity, carcinogenicity and reproductive toxicity, the time horizon for full replacement could not be estimated.

At first there was the Markov property. The theory of stochastic processes, which can be considered as an exten sion of probability theory, allows the modeling of the evolution of systems through the

Molecularly imprinted polymers (MIPs) are tailor-made chemical receptors that recognize and bind target molecules with a high affinity and selectivity. MIPs came into the spotlight in 1993 when they were dubbed "antibody mimics," and ever since, they have been widely studied for the extraction or trapping of chemical pollutants, in immunoassays, and for the design of sensors. Owing to novel synthesis strategies resulting in more biocompatible MIPs in the form of soluble nanogels, these synthetic antibodies have found favor in the biomedical domain since 2010, when for the first time, they were shown to capture and eliminate a toxin in live mice. This review, covering the years 2015-2020, will first describe the rationale behind these antibody mimics, and the different synthesis methods that have been employed for the preparation of MIPs destined for in vitro and in vivo targeting and bioimaging of cancer biomarkers, an emerging and fast-growing area of MIP applications. MIPs have been synthesized for targeting and visualizing glycans and protein-based cell receptors overexpressed in certain diseases, which are well-known biomarkers for example for tumors. When loaded with drugs, the MIPs could locally kill the tumor cells, making them efficient therapeutic agents. We will end the review by reporting how MIPs themselves can act as therapeutics by inhibiting cancer growth. These works mark a new opening in the use of MIPs for antibody therapy and even immunotherapy, as materials of the future in nanomedicine.

A number of basic algorithms for the numerical analysis and control of bifurcation phenomena are described. The emphasis is on algorithms based on pseudoarclength continuation for ordinary differential equations. Several illustrative examples computed with the AUTO software package are included. This is Part II of the paper that appeared in the preceding issue [Doedel et al., 1991] and that mainly dealt with algebraic problems.