Completing causal networks by meta-level abduction

Meta-level abduction is a method to abduce missing rules in explaining observations. By representing rule structures of a problem in a form of causal networks, meta-level abduction infers missing links and unknown nodes from incomplete networks to complete paths for observations. We examine applicability of meta-level abduction on networks containing both positive and negative causal effects. Such networks appear in many domains including biology, in which inhibitory effects are important in several biological pathways. Reasoning in networks with inhibition involves nonmonotonic inference, which can be realized by making default assumptions in abduction. We show that meta-level abduction can consistently produce both positive and negative causal relations as well as invented nodes. Case studies of meta-level abduction are presented in p53 signaling networks, in which causal relations are abduced to suppress a tumor with a new protein and to stop DNA synthesis when damage has occurred. Effects of our method are also analyzed through experiments of completing networks randomly generated with both positive and negative links.     

Application of a new algorithm using Doppler information to retrieve complex wind fields over the Black Sea from ENVISAT SAR images

Several algorithms have been proposed to retrieve near-surface wind fields from C-band synthetic aperture radar (SAR) images acquired over the ocean. They mainly differ in the way they retrieve the wind direction. Conventionally, the wind direction is taken from atmospheric models or is extracted from the linear features sometimes visible in SAR images. Recently, a new wind retrieval algorithm has been proposed, which also includes the Doppler shift induced by motions of the sea surface. In this article, we apply three wind retrieval algorithms, including the one using Doppler information, to three complex wind events encountered over the Black Sea and compare the SAR-derived wind fields with model wind fields calculated using the high-resolution weather research and forecasting (WRF) model. It is shown that the new algorithm is very efficient in resolving the 180° ambiguity in the wind direction, which is often a problem in the streak-based wind retrieval algorithms. However, the Doppler-based algorithm only yields good results for wind directions that have a significant component in the look direction of the SAR antenna. Furthermore, it is dependent on good separation of the contributions to the Doppler shift induced by surface currents and wind-related effects (wind drift and wind-sea components of the ocean wave spectrum). We conclude that an optimum wind retrieval algorithm should consist of a combination of the algorithms based on linear features and Doppler information.     

Automatic diatom identification using contour analysis by morphological curvature scale spaces

A method for automatic identification of diatoms (single-celled algae with silica shells) based on extraction of features on the contour of the cells by multi-scale mathematical morphology is presented. After extracting the contour of the cell, it is smoothed adaptively, encoded using Freeman chain code, and converted into a curvature representation which is invariant under translation and scale change. A curvature scale space is built from these data, and the most important features are extracted from it by unsupervised cluster analysis. The resulting pattern vectors, which are also rotation-invariant, provide the input for automatic identification of diatoms by decision trees and k-nearest neighbor classifiers. The method is tested on two large sets of diatom images. The techniques used are applicable to other shapes besides diatoms. Andrei C. Jalba received his B.Sc. (1998) and M.Sc. (1999) in Applied Electronics and Information Engineering from “Politehnica” University of Bucharest, Romania. He recently obtained a Ph.D. degree at the Institute for Mathematics and Computing Science of the University of Groningen, where he now is a postdoctoral researcher. His research interests include computer vision, pattern recognition, image processing, and parallel computing. Michael Wilkinson obtained an M.Sc. in astronomy from the Kapteyn Laboratory, University of Groningen (RuG) in 1993, after which he worked on image analysis of intestinal bacteria at the Department of Medical Microbiology, RuG. This work formed the basis of his Ph.D. at the Institute of Mathematics and Computing Science (IWI), RuG, in 1995. He was appointed as researcher at the Centre for High Performance Computing (also RuG) working on simulating the intestinal microbial ecosystem on parallel computers. During that time he edited the book “Digital Image Analysis of Microbes” (John Wiley, UK, 1998) together with Frits Schut. After this he worked as a researcher at the IWI on image analysis of diatoms. He is currently assistant professor at the IWI. Jos B.T.M. Roerdink received his M.Sc. (1979) in theoretical physics from the University of Nijmegen, the Netherlands. Following his Ph.D. (1983) from the University of Utrecht and a 2-year position (1983--1985) as a Postdoctoral Fellow at the University of California, San Diego, both in the area of stochastic processes, he joined the Centre for Mathematics and Computer Science in Amsterdam. There he worked from 1986-1992 on image processing and tomographic reconstruction. He was appointed associate professor (1992) and full professor (2003), respectively, at the Institute for Mathematics and Computing Science of the University of Groningen, where he currently holds a chair in Scientific Visualization and Computer Graphics. His current research interests include biomedical visualization, neuroimaging and bioinformatics. Micha Bayer graduated from St. Andrews University, Scotland, with an M.Sc. in Marine Biology in 1994. He obtained his Ph.D. in Marine Biology from there in 1998, and then followed this up with two postdoctoral positions at the Royal Botanic Garden Edinburgh, Scotland, first on the ADIAC and then on the DIADIST project. In both of these projects he was responsible for establishing the collections of diatom training data to be used for the pattern recognition systems. From 2002–2003 he was enrolled for an M.Sc. in information technology at the University of Glasgow, Scotland, and is now working as a grid developer at the National e-Science Centre at Glasgow University. Stephen Juggins is a senior lecturer at the School of Geography, Politics and Sociology, University of Newcastle. His research focuses on the use of diatoms for monitoring environmental change and on the analysis of ecological and palaeoecological data. He has worked in Europe, North America and Central Asia on problems of river water quality, historical lake acidification, coastal eutrophication and Quaternary climate change.     

Sputtered tungsten-based ternary and quaternary layers for nanocrystalline diamond deposition

Many of today's demanding applications require thin-film coatings with high hardness, toughness, and thermal stability. In many cases, coating thickness in the range 2-20 microm and low surface roughness are required. Diamond films meet many of the stated requirements, but their crystalline nature leads to a high surface roughness. Nanocrystalline diamond offers a smoother surface, but significant surface modification of the substrate is necessary for successful nanocrystalline diamond deposition and adhesion. A hybrid hard and tough material may be required for either the desired applications, or as a basis for nanocrystalline diamond film growth. One possibility is a composite system based on carbides or nitrides. Many binary carbides and nitrides offer one or more mentioned properties. By combining these binary compounds in a ternary or quaternary nanocrystalline system, we can tailor the material for a desired combination of properties. Here, we describe the results on the structural and mechanical properties of the coating systems composed of tungsten-chromium-carbide and/or nitride. These WC-Cr-(N) coatings are deposited using magnetron sputtering. The growth of adherent nanocrystalline diamond films by microwave plasma chemical vapor deposition has been demonstrated on these coatings. The WC-Cr-(N) and WC-Cr-(N)-NCD coatings are characterized with atomic force microscopy and SEM, X-ray diffraction, X-ray photoelectron spectroscopy, Raman spectroscopy, and nanoindentation.     

Thermal stresses and fracture of thin plates during cutting and welding operations

In many technological processes involving cutting or welding of thin plates there is local thermal heating or cooling at the tip of the cut by a thermal source. In this paper we analytically investigate the stress distribution induced by the point thermal source moving with a constant velocity across an infinite elastic plate. Stress intensity factor for the cut formed by the moving thermal source is calculated. It is shown that for welding the value of the stress intensity factor due to thermal stresses induced by the thermal source is equal to zero. For cutting in the case of positive values of the power of thermal source the stress intensity factors will be negative. This means that the thermal field induced by the point thermal heat source will tend to close the cut in the vicinity of the tip. The opposite situation occurs when the cut tip is cooled by the thermal source. As an example, the theory under development is shown when applied to some strength issues of thermal beam cutting of brittle materials.     

Computer aided comparative analysis of the binding modes of the adenosine receptor agonists for all known subtypes of adenosine receptors

Molecular models of all known subtypes (A1, A2A, A2B, and A3) of the human adenosine receptors were built in homology with bovine rhodopsin. These models include the transmembrane domain as well as all extracellular and intracellular hydrophilic loops and terminal domains. The molecular docking of adenosine and 46 selected derivatives was performed for each receptor subtype. A binding mode common for all studied agonists was proposed, and possible explanations for differences in the ligand activities were suggested.     

SMOS first data analysis for sea surface salinity determination

Soil Moisture and Ocean Salinity (SMOS), launched on 2 November 2009, is the first satellite mission addressing sea surface salinity (SSS) measurement from space. Its unique payload is the Microwave Imaging Radiometer using Aperture Synthesis (MIRAS), a new two-dimensional interferometer designed by the European Space Agency (ESA) and operating at the L-band frequency. This article presents a summary of SSS retrieval from SMOS observations and shows initial results obtained one year after launch. These results are encouraging, but also indicate that further improvements at various data processing levels are needed and hence are currently under investigation.     

Incremental construction of minimal deterministic finite cover automata

We present a fast incremental algorithm for constructing minimal Deterministic Finite Cover Automata (DFCA) for a given language. Since it was shown that the minimal DFCA for a language L has less states than the minimal Deterministic Finite Automata (DFA) for the same language L, this technique seems to be the best choice for incrementally building the automaton for a large language, especially when the number of states in the DFCA is significantly less than the number of states in the corresponding minimal DFA. We have implemented the proposed algorithm and have tested it against the best-known DFCA minimization technique.     

Molecularly imprinted poly(acrylonitrile‐co‐acrylic acid) matrix with sclareol

There are presented results regarding a new set of molecularly imprinted polymers (MIPs) based on acrylonitrile:acrylic acid (AN:AA) copolymer matrix. As template, it was used sclareol, an important anticancer bioactive compound, never used before for molecular imprinting. An emerging and insufficient studied MIP preparation method, namely the phase inversion, was used to prepare 0.8 mm spherical sclareol MIPs (S‐MIPs). Three AN:AA copolymers, having the initial monomer ratios 90:10, 80:20, and 70:30, were synthesized by radical copolymerization in emulsion, without emulsifier. After that, each copolymer was dissolved in the presence of the template (sclareol) in dimethylformamide. The imprinting and the morphology of these new materials were analyzed by rheology, elemental analysis, infrared spectroscopy, size exclusion chromatography, thermogravimetric analysis, differential scanning calorimetry, batch rebinding tests, and Scatchard analysis. The conclusion was that the AN:AA‐80:20 matrix proved to be the optimized solution between high rigidity (given by the AN segments) and high affinity for the template (given by AA segments), the average imprinting factor for this system being 2.67. POLYM. ENG. SCI., 54:1484–1494, 2014. © 2013 Society of Plastics Engineers     

Positional‐Species Composition of Triacylglycerols from the Arils of Mature Euonymus Fruits

Positional‐species composition (PSC) of 1,2,3‐triacyl‐sn‐glycerols (TAG) from the arils of mature fruits of 13 species of Euonymus L. genus was established. The residues of six major fatty acids (FA), palmitic, stearic, hexadecenoic (H), octadecenoic (O), linoleic (L), and linolenic, were present in the TAG. PSC of TAG was determined by their partial lipase hydrolysis. By using hierarchical cluster and principal component analyses, it was definitely demonstrated that separate taxonomic units forming this genus were significantly distinguished as regards PSC of TAG. In particular, the Euonymus subgenus greatly exceeded the Kalonymus subgenus in both total content of L in TAG and in the rate of its incorporation into their mid‐position, while TAG of Kalonymus were marked by a prevalence of O‐TAG and sn‐2‐O isomers. Thus, these subgenera were significantly distinct in the rate of incorporation of O and L residues in the sn‐2 position of TAG molecules. Meanwhile, the TAG from the Euonymus section species were marked by an enhanced concentration of H and the incorporation of H in UUU TAG was much more active than in other TAG types. As for positional‐type composition of TAG, saturated FA were always virtually absent in the sn‐2 position of Euonymus aril TAG.