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10th ieee International conference on Intelligent systems, IS 2020

作者： Blidov, Hristo Doukovska, Lyubka Atanassov, Krassimir Institute of Information and Communication Technologies Bulgarian Academy of Sciences Department of Intelligent Systems Acad. G. Bonchev Str. Bl. 2 Sofia1113 Bulgaria Dept. of Bioinformatics and Mathematical Modelling Institute of Biophysics and Biomedical Engineering Bulgarian Academy of Sciences Bl. 105 Acad. G. Bonchev Str. Sofia1113 Bulgaria Intelligent Systems Laboratory Prof. Asen Zlatarov University Burgas8010 Bulgaria

ISBN: (纸本)9781728154565

In the present paper an application to the apparatus of generalized nets is proposed for modeling the first phase of the general claim process. The advantages of using such model are very different, some of them are expressed in helping to detect and eliminate unnecessary complications in the process itself, leading to its simplification and optimization, presenting a complex process simpler and more understandable, for scientific and teaching needs etc. © 2020 ieee.

关键词： General claim process Generalizexd net Model

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InterCriteria Analysis of the Financial System in the EU Countries 10

InterCriteria Analysis of the Financial System in the EU Cou...

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10th ieee International conference on Intelligent systems, IS 2020

作者： Danailova-Veleva, Slaviiana Doukovska, Lyubka Atanassova, Vassia IICT-BAS Intelligent Systems Department Sofia Bulgaria IBBE-BAS Bioinformatics and Mathematical Modeling Department Sofia Bulgaria

ISBN: (纸本)9781728154565

The paper presents an analysis of the financial systems of the EU member states which is an actual problem. The paper showcases a new method of analyzing and grading of the connection between the criteria defining the state of the financial systems. The presented multicriteria decision making method is based on two fundamental concepts: Intuitionistic Fuzzy Sets (IFSs) and Index Matrices (IMs). We have named it 'InterCriteria' decision making approach. The data for the financial systems of the EU member states is sourced from the World Economic Forum's Global Competitiveness Reports for 2019. The assessment was made using 12 main drivers, so called Pillars. The main goal is to assess the competitiveness of each EU country. © 2020 ieee.

关键词： Intelligent systems

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Generalized Nets as Tools for Modelling of the Neural Networks 10

Generalized Nets as Tools for Modelling of the Neural Networ...

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10th ieee International conference on Intelligent systems, IS 2020

作者： Atanassov, Krassimir Sotirov, Sotir Asen Zlatarov University Prof. Yakimov 1 bul. Burgas Bulgaria Bioinformatics and Mathematical Modelling Department Institute of Biophysics and Biomedical Engineering Bulgarian Academy of Sciences Acad. G. Bonchev Str. Block 105 Sofia1113 Bulgaria

ISBN: (数字)9781728154565

ISBN: (纸本)9781728154565

In a series of papers, Generalized Nets (GNs) are constructed representing the functioning and the results of the work of different types of Neural Networks (NNs). In the present research, we show that the functioning and the results of the work of a given NN can be represented by a GN from a very simple type, but the so constructed GN-model can be used for extension of the concept of NNs. © 2020 ieee.

关键词： Artificial neural networks Biological neural networks Multi-layer neural network Mathematical model Biological system modeling Indexes

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Proposal of a New bioinformatics Pipeline for Metataxonomics in Precision Medicine 13th

Proposal of a New Bioinformatics Pipeline for Metataxonomics...

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13th International conference on Practical Applications of computational Biology and bioinformatics (PACBB)

作者： Grana-Castro, Osvaldo Lopez-Fernandez, Hugo Fdez-Riverola, Florentino Al-Shahrour, Fatima Glez-Pena, Daniel Spanish Natl Canc Res Ctr CNIO Struct Biol Programme Bioinformat Unit C Melchor Fernandez Almagro 3 Madrid 28029 Spain Univ Vigo ESEI Dept Comp Sci Campus As Lagoas Orense 32004 Spain Biomed Res Ctr CINBIO Campus Univ Lagoas Marcosende Vigo 36310 Spain SERGAS UVIGO Galicia Sur Hlth Res Inst SING Res Grp ISS Galicia Sur Vigo Spain

ISBN: (纸本)9783030238735;9783030238728

Microbes are found all over the human body and they have a direct impact on the immune system, metabolism and homeostasis. The homeostatic balance of the intestinal microflora can be broken under certain conditions, a situation known as dysbiosis, which can lead to disease, including certain types of cancer, or even affect a patient response to a therapeutic treatment. Metataxonomics pursues the identification of the bacteria species that are present in biological samples of interest, through the sequencing of the 16S rRNA gene, a highly conserved genetic marker that is present in most prokaryotes. Interactions between the microbiota and the human host are being very relevant in the expansion of precision medicine and cancer research, to better predict the risk of disease and to implement bacteria-directed therapeutics. In order to take metataxonomics to the clinic, efficient bioinformatics pipelines are required, that are flexible and portable, and that are able to classify groups of biological samples according to microbiome diversity. With this objective in mind, we propose a new bioinformatics pipeline to analyze biological samples obtained through NGS of the 16S rRNA gene, doing all the required quality checks and computational calculations. The results obtained with this pipeline are aimed to be interpreted together with host DNA exome or RNA-Seq studies and clinical data, to improve the knowledge about the potential reasons that could lead to disease or to a worst patient treatment response.

关键词： NGS 16S rRNA gene Metataxonomics Precision medicine

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ieee BIBM 2018 Special Section

IEEE TRANSACTIONS ON NANOBIOSCIENCE

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ieee TRANSACTIONS ON NANOBIOSCIENCE 2019年第3期18卷 271-272页

作者： Hu, Xiaohua Drexel Univ Philadelphia PA 19104 USA

bioinformatics and biomedicine research is fundamental to our understanding of complex biological systems, impacting the science and technology of fields ranging from agricultural and environmental sciences to pharmaceutical and medical sciences. This type of research requires close collaboration among multidisciplinary teams of researchers in computer science, statistics, physics, engineering, life sciences and medical sciences, and their interfaces. The ieee International conference on bioinformatics and Biomedicine aims to provide an open and interactive forum to catalyze the cross-fertilization of ideas from these disciplines and to bridge our knowledge gaps.

关键词： Special issues and sections Meetings bioinformatics computational systems biology Genomics

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Generalized Net Model for Creating and Evaluating of Educational Content 10

Generalized Net Model for Creating and Evaluating of Educati...

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10th ieee International conference on Intelligent systems, IS 2020

作者： Shannon, Anthony Atanassov, Krassimir Sotirova, Evdokia Vasilev, Valentin University of New South Wale Resident Fellow Warrane College KensingtonNSW Australia Bulgarian Academy of Sciences Department of Bioinformatics and Mathematical Modelling Institute of Biophysics and Biomedical Engineering Sofia Bulgaria Prof. Assen Zlatarov University Faculty of Public Health and Health Care Burgas Bulgaria

ISBN: (纸本)9781728154565

The research expounded in this paper is a continuation of previous investigations into the modelling of information flow with a typical university. A generalized net model which describes the process of creating and evaluation of educational content using a set of criteria is constructed. The example for education of medical students in diabetes mellitus and possibilities for venous thrombotic disease is given. © 2020 ieee.

关键词： Education computing

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A GPU-based approach for detecting genome-wide SNP-SNP interactions of quantitative trait in ADNI cohorts

A GPU-based approach for detecting genome-wide SNP-SNP inter...

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ieee International conference on bioinformatics and Biomedicine (BIBM)

作者： Qiushi Zhang Hongwei Liu Lang Ao Hong Liang Dandan Chen School of Computer Science Northeast Electric Power University Jilin China School of Computer Science Northeast Electric Power Jilin China College of Intelligent Systems Science and Engineering Harbin Engineering University Harbin China College of Intelligent Systems Science and Engineering & School of Automation Engineering Harbin Engineering University & Northeast Electric Power University Harbin China

ISBN: (数字)9781665468190

ISBN: (纸本)9781665468206

Genome-wide association studies (GWAS) have proven that thousands of single nucleotide polymorphisms (SNP) are closely related to complex disease. As a neurodegenerative complex disease, Alzheimer’s disease (AD) still is a topic under active research in recent GWAS. Studies have shown that SNPSNP interactions (a.k.a. epistasis) can be used to explain genetic variation of AD. However, most existing epistasis detection methods are difficult to perform an exhaustive search, because of the huge computational challenges. Moreover, the possible SNPSNP interactions of low main effects are largely ignored in common GWAS of AD. In this context, potential risk variants at AD loci identified by GWAS only explain part of the heritability. In particular, the developed epistasis detection tools are mostly designed for case-control studies, whereas the available tools and approaches for quantitative trait (Qt) studies are quite limited. To overcome this problem, we propose an approach named GEEpiQt (GPU-based exhaustive epistasis detection of Qt). With GEEpiQt, 159 billion SNPs pairs were detected based on GPUs, and a total of 318 billion regression calculations were performed. All these calculations took about 26 hours to implement an exhaustive search across the whole genome. In terms of the results we have got, a total of 14,016 SNPs pairs showed statistical significance. Among the 14,016 pairs of SNPs, 467 pairs meeting the cell-size criterion. By analyzing with Enrichr disease database, 188 genes were found associated with AD, and, in particular, 91 novel genes were identified worth in-depth study. In summary, the proposed approach is an exhaustive epistasis research without missing any signals across the whole genome, which has a better detection power outperform other competitive approaches. The new suspected interactions discovered by GEEpiQt are helpful for the AD diagnosis and prevention. Therefore, there is much room for exploration in exhaustive SNP-SNP interactions de

关键词： Databases Linear regression Genomics Graphics processing units Network analyzers Clinical diagnosis bioinformatics

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A Hybrid of Particle Swarm Optimization and Minimization of Metabolic Adjustment for Ethanol Production of Escherichia Coli 13th

A Hybrid of Particle Swarm Optimization and Minimization of ...

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13th International conference on Practical Applications of computational Biology and bioinformatics (PACBB)

作者： Lee, Mee K. Mohamad, Mohd Saberi Choon, Yee Wen Daud, Kauthar Mohd Nasarudin, Nurul Athirah Ismail, Mohd Arfian Ibrahim, Zuwairie Napis, Suhaimi Sinnott, Richard O. Univ Teknol Malaysia Sch Comp Artificial Intelligence & Bioinformat Res Grp Fac Engn Skudai 81310 Johor Malaysia Univ Malaysia Kelantan Inst Artificial Intelligence & Big Data City Campus Kota Baharu 16100 Kelantan Malaysia Univ Malaysia Kelantan Fac Bioengn & Technol Jeli CampusLock Bag 100 Jeli 17600 Kelantan Malaysia Univ Malaysia Pahang Fac Comp Syst & Software Engn Soft Comp & Intelligent Syst Res Grp Kuantan 26300 Pahang Malaysia Univ Malaysia Pahang Fac Mfg Engn Pekan Pahang Malaysia Univ Putra Malaysia Fac Biotechnol & Biomol Sci Upm Serdang 43400 Selangor Malaysia Univ Melbourne Sch Comp & Informat Syst Melbourne Vic 3052 Australia

ISBN: (纸本)9783030238735;9783030238728

Ethanol is a chemical-colourless compound that widely used in pharmaceutical, medicines, food products, and industrial applications. As the demand for ethanol is rising recently, attention has been given on metabolic engineering of Escherichia coli (***) to enhance its production through alteration of its genetic content. This research mainly aimed to optimize ethanol production in *** using a gene knockout strategy. Several gene knockout strategies like OptKnock and OptGene have been proposed previously. However, most of them suffer from premature convergence. Hence, a hybrid of Particle Swarm Optimization (PSO) and Minimization of Metabolic Adjustment (MOMA) algorithm is proposed to identify the list of gene knockouts in maximizing the ethanol production and growth rate of ***. Experiment results show that the hybrid method is comparable with two state-of-the-art methods in term of growth rate and production.

关键词： Particle swarm optimization Minimization of metabolic adjustment Metabolic engineering bioinformatics Artificial intelligence

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Guest Editorial for Special Section on the 7th National conference on bioinformatics and systems Biology of China

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ieee-ACM TRANSACTIONS ON computational BIOLOGY AND bioinformatics 2019年第4期16卷 1262-1263页

作者： Guo, Feng-Biao Ji, Xinglai Huang, Jian Univ Elect Sci & Technol China Ctr Informat Biol Chengdu 610054 Sichuan Peoples R China Yunnan Univ Sch Life Sci Kunming 650091 Yunnan Peoples R China

The eight papers in this special section were presented at the 7th National conference on bioinformatics and systems Biology of China in 2016. The conference is the most influential conference of the Chinese scientifi... 详细信息

关键词： Special Issues And Sections bioinformatics systems Biology Meetings

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Multi-parameter based Characterization of Biosamples using a Broadband Microstrip Patch based RF Sensor

Multi-parameter based Characterization of Biosamples using a...

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ieee International conference on Nano/Molecular Medicine and Engineering (NANOMED)

作者： Annesha Mazumder Syed Azeemuddin Prabhakar Bhimalapuram Tapan K. Sau Center for VLSI and Embedded Systems Technology IIIT-Hyderabad Center for Computational Natural Sciences and Bioinformatics IIIT-Hyderabad

ISBN: (纸本)9781665458573

In this study, we characterize biosamples using a microstrip patch based Radio Frequency (RF) sensor by integrating both resonant and non-resonant parameters. In particular, the resonance frequency, the resonance amplitude, −10 dB bandwidth, range of operation, and return loss at center frequency were employed to perform the analysis. The idea was to utilize multiple parameters to build a comprehensive understanding of different bio-samples. In order to demonstrate the working of the methodology, two sets of analytes were studied-(i) aqueous solutions of biomolecules and (ii) body fluids. For both sets of analytes, the method demonstrated significant efficiency in performing qualitative characterization.

关键词： Radio frequency Fluids Resonant frequency Molecular biophysics Bandwidth Broadband communication Microstrip

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