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

A new data-driven neural fuzzy system with collaborative fuzzy clustering mechanism

© 2015 Elsevier B.V. In this paper, a novel fuzzy rule transfer mechanism for self-constructing neural fuzzy inference networks is being proposed. The features of the proposed method, termed data-driven neural fuzzy system with collaborative fuzzy clustering mechanism (DDNFS-CFCM) are; (1) Fuzzy rules are generated facilely by fuzzy c-means (FCM) and then adapted by the preprocessed collaborative fuzzy clustering (PCFC) technique, and (2) Structure and parameter learning are performed simultaneously without selecting the initial parameters. The DDNFS-CFCM can be applied to deal with big data problems by the virtue of the PCFC technique, which is capable of dealing with immense datasets while preserving the privacy and security of datasets. Initially, the entire dataset is organized into two individual datasets for the PCFC procedure, where each of the dataset is clustered separately. The knowledge of prototype variables (cluster centers) and the matrix of just one halve of the dataset through collaborative technique are deployed. The DDNFS-CFCM is able to achieve consistency in the presence of collective knowledge of the PCFC and boost the system modeling process by parameter learning ability of the self-constructing neural fuzzy inference networks (SONFIN). The proposed method outperforms other existing methods for time series prediction problems

Human Being Emotion in Cognitive Intelligent Robotic Control Pt I: Quantum / Soft Computing Approach

Abstract. The article consists of two parts. Part I shows the possibility of quantum / soft computing optimizers of knowledge bases (QSCOptKB™) as the toolkit of quantum deep machine learning technology implementation in the solution’s search of intelligent cognitive control tasks applied the cognitive helmet as neurointerface. In particular, case, the aim of this part is to demonstrate the possibility of classifying the mental states of a human being operator in on line with knowledge extraction from electroencephalograms based on SCOptKB™ and QCOptKB™ sophisticated toolkit. Application of soft computing technologies to identify objective indicators of the psychophysiological state of an examined person described. The role and necessity of applying intelligent information technologies development based on computational intelligence toolkits in the task of objective estimation of a general psychophysical state of a human being operator shown. Developed information technology examined with special (difficult in diagnostic practice) examples emotion state estimation of autism children (ASD) and dementia and background of the knowledge bases design for intelligent robot of service use is it. Application of cognitive intelligent control in navigation of autonomous robot for avoidance of obstacles demonstrated.

A Comparative Study of Chi-Square Goodness-of-Fit Under Fuzzy Environments

Testing goodness-of-fit plays a vital role in data analysis.  This problem seems to be much more complicated in the presence of vague data.  In this paper, the chi-square goodness-of-fit under trapezoidal fuzzy numbers (tfns.) is proposed using alpha cut interval method.  And the ranking grades of tfns. are also used to compute the chi-square test statistic.  The proposed technique is illustrated with two different numerical examples along with different methods of ranking grades for a concrete comparative study. Keywords: Chi-square Test, Fuzzy Sets, Trapezoidal Fuzzy Numbers, Alpha Cut, Ranking Function, Graded Mean Integration Representation

Modified generalized linear failure rate distribution: Properties and reliability analysis

This paper introduces a new comprehensive four-parameter distribution called the modified generalized linear failure rate (MGLFR) distribution. The method generalizes some well-known and most commonly used distributions in reliability such as exponential, Rayleigh, linear failure rate, generalized linear failure rate and modified Weibull distribution. The study also investigates some essential properties of this new distribution and considers the problem of the evaluation of system reliability by describing the lifetimes of components based on a fuzzy MGLFR distribution and by developing fuzzy reliability characteristics. The results can be applied to determine the reliability of real objects where parameters of lifetime variable are subject to uncertainty

Recursion Aware Modeling and Discovery For Hierarchical Software Event Log Analysis (Extended)

This extended paper presents 1) a novel hierarchy and recursion extension to the process tree model; and 2) the first, recursion aware process model discovery technique that leverages hierarchical information in event logs, typically available for software systems. This technique allows us to analyze the operational processes of software systems under real-life conditions at multiple levels of granularity. The work can be positioned in-between reverse engineering and process mining. An implementation of the proposed approach is available as a ProM plugin. Experimental results based on real-life (software) event logs demonstrate the feasibility and usefulness of the approach and show the huge potential to speed up discovery by exploiting the available hierarchy.Comment: Extended version (14 pages total) of the paper Recursion Aware Modeling and Discovery For Hierarchical Software Event Log Analysis. This Technical Report version includes the guarantee proofs for the proposed discovery algorithm