Toward a multilevel representation of protein molecules: comparative approaches to the aggregation/folding propensity problem

This paper builds upon the fundamental work of Niwa et al. [34], which provides the unique possibility to analyze the relative aggregation/folding propensity of the elements of the entire Escherichia coli (E. coli) proteome in a cell-free standardized microenvironment. The hardness of the problem comes from the superposition between the driving forces of intra- and inter-molecule interactions and it is mirrored by the evidences of shift from folding to aggregation phenotypes by single-point mutations [10]. Here we apply several state-of-the-art classification methods coming from the field of structural pattern recognition, with the aim to compare different representations of the same proteins gathered from the Niwa et al. data base; such representations include sequences and labeled (contact) graphs enriched with chemico-physical attributes. By this comparison, we are able to identify also some interesting general properties of proteins. Notably, (i) we suggest a threshold around 250 residues discriminating "easily foldable" from "hardly foldable" molecules consistent with other independent experiments, and (ii) we highlight the relevance of contact graph spectra for folding behavior discrimination and characterization of the E. coli solubility data. The soundness of the experimental results presented in this paper is proved by the statistically relevant relationships discovered among the chemico-physical description of proteins and the developed cost matrix of substitution used in the various discrimination systems.Comment: 17 pages, 3 figures, 46 reference

Comparison of different strategies of utilizing fuzzy clustering in structure identification

Fuzzy systems approximate highly nonlinear systems by means of fuzzy "if-then" rules. In the literature, various algorithms are proposed for mining. These algorithms commonly utilize fuzzy clustering in structure identification. Basically, there are three different approaches in which one can utilize fuzzy clustering; the �first one is based on input space clustering, the second one considers clustering realized in the output space, while the third one is concerned with clustering realized in the combined input-output space. In this study, we analyze these three approaches. We discuss each of the algorithms in great detail and o¤er a thorough comparative analysis. Finally, we compare the performances of these algorithms in a medical diagnosis classi�cation problem, namely Aachen Aphasia Test. The experiment and the results provide a valuable insight about the merits and the shortcomings of these three clustering approaches

Measuring Partial Membership in Categories: Alternative Tools

Governmen

MODELLING EXPECTATIONS WITH GENEFER- AN ARTIFICIAL INTELLIGENCE APPROACH

Economic modelling of financial markets means to model highly complex systems in which expectations can be the dominant driving forces. Therefore it is necessary to focus on how agents form their expectations. We believe that they look for patterns, hypothesize, try, make mistakes, learn and adapt. AgentsÆ bounded rationality leads us to a rule-based approach which we model using Fuzzy Rule-Bases. E. g. if a single agent believes the exchange rate is determined by a set of possible inputs and is asked to put their relationship in words his answer will probably reveal a fuzzy nature like: "IF the inflation rate in the EURO-Zone is low and the GDP growth rate is larger than in the US THEN the EURO will rise against the USD". æLowÆ and ælargerÆ are fuzzy terms which give a gradual linguistic meaning to crisp intervalls in the respective universes of discourse. In order to learn a Fuzzy Fuzzy Rule base from examples we introduce Genetic Algorithms and Artificial Neural Networks as learning operators. These examples can either be empirical data or originate from an economic simulation model. The software GENEFER (GEnetic NEural Fuzzy ExplorER) has been developed for designing such a Fuzzy Rule Base. The design process is modular and comprises Input Identification, Fuzzification, Rule-Base Generating and Rule-Base Tuning. The two latter steps make use of genetic and neural learning algorithms for optimizing the Fuzzy Rule-Base.

Adaptive inferential sensors based on evolving fuzzy models

A new technique to the design and use of inferential sensors in the process industry is proposed in this paper, which is based on the recently introduced concept of evolving fuzzy models (EFMs). They address the challenge that the modern process industry faces today, namely, to develop such adaptive and self-calibrating online inferential sensors that reduce the maintenance costs while keeping the high precision and interpretability/transparency. The proposed new methodology makes possible inferential sensors to recalibrate automatically, which reduces significantly the life-cycle efforts for their maintenance. This is achieved by the adaptive and flexible open-structure EFM used. The novelty of this paper lies in the following: (1) the overall concept of inferential sensors with evolving and self-developing structure from the data streams; (2) the new methodology for online automatic selection of input variables that are most relevant for the prediction; (3) the technique to detect automatically a shift in the data pattern using the age of the clusters (and fuzzy rules); (4) the online standardization technique used by the learning procedure of the evolving model; and (5) the application of this innovative approach to several real-life industrial processes from the chemical industry (evolving inferential sensors, namely, eSensors, were used for predicting the chemical properties of different products in The Dow Chemical Company, Freeport, TX). It should be noted, however, that the methodology and conclusions of this paper are valid for the broader area of chemical and process industries in general. The results demonstrate that well-interpretable and with-simple-structure inferential sensors can automatically be designed from the data stream in real time, which predict various process variables of interest. The proposed approach can be used as a basis for the development of a new generation of adaptive and evolving inferential sensors that can a- ddress the challenges of the modern advanced process industry

Do the citizens of Europe trust their police?

Purpose - The maintenance of public order and the control of crime are clearly amongst the primary objectives of global law enforcement agencies. An important antecedent to this is the consideration of public trust in their police force. The purpose of this paper is to utilise data from the 5th Round European Social Survey (ESS), to investigate how public social indicators may highlight the level of trust in a country’s police force. Design/methodology/approach – The results from the ESS are analysed using fuzzy-set Qualitative Comparative Analysis (fsQCA), multiply conjunctional causal configurations of the considered social indicators are then established and analysed. Findings - A consequence of using fsQCA, asymmetric causal configurations are identified for the relative high and low limiting levels of trust towards the police in the considered countries. The results offer novel insights into the relationship between social indicators and police trust, as well as expositing a nascent technique (fsQCA) that may offer future potential in this area. Originality/value – This paper introduces a novel technique to analyse a major European data set relating to citizens perceptions of the police. The findings might prove useful for policing organisations as they develop strategies to maintain/improve the level of trust and confidence of citizens in the policing services they provide