Combination of Neuro-Fuzzy Network Models with Biological Knowledge for Reconstructing Gene Regulatory Networks

Inferring gene regulatory networks from large-scale expression data is an important topic in both cellular systems and computational biology. The inference of regulators might be the core factor for understanding actual regulatory conditions in gene regulatory networks, especially when strong regulators do work significantly. In this paper, we propose a novel approach based on combining neuro-fu^zy network models with biological knowledge to infer strong regulators and interrelated fuzzy rules. The hybrid neuro-fuzzy architecture can not only infer the fuzzy rules, which are suitable for describing the regulatory conditions in regulatory nctworks＋ but also explain the meaning of nodes and weight value in the neural network. It can get useful rules automatically without lhctitious judgments. At the same time, it does not add recursive layers to the model, and the model can also strengthen the relationships among genes and reduce calculation. We use the proposed approach to reconstruct a partial gene regulatory network of yeast, The results show that this approach can work effectively.

NEURO-FUZZY NETWORKS IN CAPP

The neuro-fuzzy network (NFN) is used to model the rules and experience of the process planner. NFN is to select the manufacturing operations sequences for the part features. A detailed description of the NFN system development is given. The rule structure utilizes sigmoid functions to fuzzify the inputs, multiplication to combine the if Part of the rules and summation to integrate the fired rules. Expert knowledge from previous process Plans is used in determinning the initial network structure and parameters of the membership functions. A back-propagation (BP) training algorithm was developed to fine tune the knowledge to company standards using the input-output data from executions of previous plans. The method is illustrated by an industrial example.

Modelling and Multi-Objective Optimal Control of Batch Processes Using Recurrent Neuro-fuzzy Networks

In this paper, the modelling and multi-objective optimal control of batch processes, using a recurrent neuro-fuzzy network, are presented. The recurrent neuro-fuzzy network, forms a ＂global＂ nonlinear long-range prediction model through the fuzzy conjunction of a number of ＂local＂ linear dynamic models. Network output is fed back to network input through one or more time delay units, which ensure that predictions from the recurrent neuro-fuzzy network are long-range. In building a recurrent neural network model, process knowledge is used initially to partition the processes non-linear characteristics into several local operating regions, and to aid in the initialisation of corresponding network weights. Process operational data is then used to train the network. Membership functions of the local regimes are identified, and local models are discovered via network training. Based on a recurrent neuro-fuzzy network model, a multi-objective optimal control policy can be obtained. The proposed technique is applied to a fed-batch reactor.

Study on fasART neuro-fuzzy networks for distinguishing the difficulty degree of top coal caving in steep seam

Distinguishing the difficulty degree of top coal caving was a precondition of the popularization and application of the roadway sub-level caving in steep seam. Because of complexity and uncertainty of the coal seam, the expression of influence factors was diffi-culty with exact data. According to the fuzzy and uncertainty of influence factors, triangular fuzzy membership functions were adopted to carry out the factors ambiguity, of which the factors not only have the consistency of semantic meaning, but also dissolve sufficiently expert knowledge. Based on the properties and structures of fasART fuzzy neural net-works of fuzzy logic system and practical needs, a simplified fasART model was put for-ward, stability and reliability of the network were improved, the deficiency of learning sam-ples and uncertainty of the factors were better treated. The method is of effective and practical value was identified by experiments.

Pluggable multitask diffractive neural networks based on cascaded metasurfaces

Optical neural networks have significant advantages in terms of power consumption,parallelism,and high computing speed,which has intrigued extensive attention in both academic and engineering communities.It has been considered as one of the powerful tools in promoting the fields of imaging processing and object recognition.However,the existing optical system architecture cannot be reconstructed to the realization of multi-functional artificial intelligence systems simultaneously.To push the development of this issue,we propose the pluggable diffractive neural networks(P-DNN),a general paradigm resorting to the cascaded metasurfaces,which can be applied to recognize various tasks by switching internal plug-ins.As the proof-of-principle,the recognition functions of six types of handwritten digits and six types of fashions are numerical simulated and experimental demonstrated at near-infrared regimes.Encouragingly,the proposed paradigm not only improves the flexibility of the optical neural networks but paves the new route for achieving high-speed,low-power and versatile artificial intelligence systems.

Activation Redistribution Based Hybrid Asymmetric Quantization Method of Neural Networks

The demand for adopting neural networks in resource-constrained embedded devices is continuously increasing.Quantization is one of the most promising solutions to reduce computational cost and memory storage on embedded devices.In order to reduce the complexity and overhead of deploying neural networks on Integeronly hardware,most current quantization methods use a symmetric quantization mapping strategy to quantize a floating-point neural network into an integer network.However,although symmetric quantization has the advantage of easier implementation,it is sub-optimal for cases where the range could be skewed and not symmetric.This often comes at the cost of lower accuracy.This paper proposed an activation redistribution-based hybrid asymmetric quantizationmethod for neural networks.The proposedmethod takes data distribution into consideration and can resolve the contradiction between the quantization accuracy and the ease of implementation,balance the trade-off between clipping range and quantization resolution,and thus improve the accuracy of the quantized neural network.The experimental results indicate that the accuracy of the proposed method is 2.02%and 5.52%higher than the traditional symmetric quantization method for classification and detection tasks,respectively.The proposed method paves the way for computationally intensive neural network models to be deployed on devices with limited computing resources.Codes will be available on https://github.com/ycjcy/Hybrid-Asymmetric-Quantization.

Biodiversity metrics on ecological networks: Demonstrated with animal gastrointestinal microbiomes

Biodiversity has become a terminology familiar to virtually every citizen in modern societies.It is said that ecology studies the economy of nature,and economy studies the ecology of humans;then measuring biodiversity should be similar with measuring national wealth.Indeed,there have been many parallels between ecology and economics,actually beyond analogies.For example,arguably the second most widely used biodiversity metric,Simpson(1949)’s diversity index,is a function of familiar Gini-index in economics.One of the biggest challenges has been the high“diversity”of diversity indexes due to their excessive“speciation”-there are so many indexes,similar to each country’s sovereign currency-leaving confused diversity practitioners in dilemma.In 1973,Hill introduced the concept of“numbers equivalent”,which is based on Renyi entropy and originated in economics,but possibly due to his abstruse interpretation of the concept,his message was not widely received by ecologists until nearly four decades later.What Hill suggested was similar to link the US dollar to gold at the rate of$35 per ounce under the Bretton Woods system.The Hill numbers now are considered most appropriate biodiversity metrics system,unifying Shannon,Simpson and other diversity indexes.Here,we approach to another paradigmatic shift-measuring biodiversity on ecological networks-demonstrated with animal gastrointestinal microbiomes representing four major invertebrate classes and all six vertebrate classes.The network diversity can reveal the diversity of species interactions,which is a necessary step for understanding the spatial and temporal structures and dynamics of biodiversity across environmental gradients.

Insights into microbiota community dynamics and flavor development mechanism during golden pomfret(Trachinotus ovatus)fermentation based on single-molecule real-time sequencing and molecular networking analysis

Popular fermented golden pomfret(Trachinotus ovatus)is prepared via spontaneous fermentation;however,the mechanisms underlying the regulation of its flavor development remain unclear.This study shows the roles of the complex microbiota and the dynamic changes in microbial community and flavor compounds during fish fermentation.Single-molecule real-time sequencing and molecular networking analysis revealed the correlations among different microbial genera and the relationships between microbial taxa and volatile compounds.Mechanisms underlying flavor development were also elucidated via KEGG based functional annotations.Clostridium,Shewanella,and Staphylococcus were the dominant microbial genera.Forty-nine volatile compounds were detected in the fermented fish samples,with thirteen identified as characteristic volatile compounds(ROAV>1).Volatile profiles resulted from the interactions among the microorganisms and derived enzymes,with the main metabolic pathways being amino acid biosynthesis/metabolism,carbon metabolism,and glycolysis/gluconeogenesis.This study demonstrated the approaches for distinguishing key microbiota associated with volatile compounds and monitoring the industrial production of high-quality fermented fish products.

A data-driven model of drop size prediction based on artificial neural networks using small-scale data sets

An artificial neural network(ANN)method is introduced to predict drop size in two kinds of pulsed columns with small-scale data sets.After training,the deviation between calculate and experimental results are 3.8%and 9.3%,respectively.Through ANN model,the influence of interfacial tension and pulsation intensity on the droplet diameter has been developed.Droplet size gradually increases with the increase of interfacial tension,and decreases with the increase of pulse intensity.It can be seen that the accuracy of ANN model in predicting droplet size outside the training set range is reach the same level as the accuracy of correlation obtained based on experiments within this range.For two kinds of columns,the drop size prediction deviations of ANN model are 9.6%and 18.5%and the deviations in correlations are 11%and 15%.

Influencer identification of dynamical networks based on an information entropy dimension reduction method

Identifying critical nodes or sets in large-scale networks is a fundamental scientific problem and one of the key research directions in the fields of data mining and network science when implementing network attacks, defense, repair and control.Traditional methods usually begin from the centrality, node location or the impact on the largest connected component after node destruction, mainly based on the network structure.However, these algorithms do not consider network state changes.We applied a model that combines a random connectivity matrix and minimal low-dimensional structures to represent network connectivity.By using mean field theory and information entropy to calculate node activity,we calculated the overlap between the random parts and fixed low-dimensional parts to quantify the influence of node impact on network state changes and ranked them by importance.We applied this algorithm and the proposed importance algorithm to the overall analysis and stratified analysis of the C.elegans neural network.We observed a change in the critical entropy of the network state and by utilizing the proposed method we can calculate the nodes that indirectly affect muscle cells through neural layers.

A multilayer network diffusion-based model for reviewer recommendation

With the rapid growth of manuscript submissions,finding eligible reviewers for every submission has become a heavy task.Recommender systems are powerful tools developed in computer science and information science to deal with this problem.However,most existing approaches resort to text mining techniques to match manuscripts with potential reviewers,which require high-quality textual information to perform well.In this paper,we propose a reviewer recommendation algorithm based on a network diffusion process on a scholar-paper multilayer network,with no requirement for textual information.The network incorporates the relationship of scholar-paper pairs,the collaboration among scholars,and the bibliographic coupling among papers.Experimental results show that our proposed algorithm outperforms other state-of-the-art recommendation methods that use graph random walk and matrix factorization and methods that use machine learning and natural language processing,with improvements of over 7.62%in recall,5.66%in hit rate,and 47.53%in ranking score.Our work sheds light on the effectiveness of multilayer network diffusion-based methods in the reviewer recommendation problem,which will help to facilitate the peer-review process and promote information retrieval research in other practical scenes.

Caching Strategies in NDN Based Wireless Ad Hoc Network:A Survey

Wireless Ad Hoc Networks consist of devices that are wirelessly connected.Mobile Ad Hoc Networks(MANETs),Internet of Things(IoT),and Vehicular Ad Hoc Networks(VANETs)are the main domains of wireless ad hoc network.Internet is used in wireless ad hoc network.Internet is based on Transmission Control Protocol(TCP)/Internet Protocol(IP)network where clients and servers interact with each other with the help of IP in a pre-defined environment.Internet fetches data from a fixed location.Data redundancy,mobility,and location dependency are the main issues of the IP network paradigm.All these factors result in poor performance of wireless ad hoc networks.The main disadvantage of IP is that,it does not provide in-network caching.Therefore,there is a need to move towards a new network that overcomes these limitations.Named Data Network(NDN)is a network that overcomes these limitations.NDN is a project of Information-centric Network(ICN).NDN provides in-network caching which helps in fast response to user queries.Implementing NDN in wireless ad hoc network provides many benefits such as caching,mobility,scalability,security,and privacy.By considering the certainty,in this survey paper,we present a comprehensive survey on Caching Strategies in NDN-based Wireless AdHocNetwork.Various cachingmechanism-based results are also described.In the last,we also shed light on the challenges and future directions of this promising field to provide a clear understanding of what caching-related problems exist in NDN-based wireless ad hoc networks.

Source localization in signed networks with effective distance

While progress has been made in information source localization,it has overlooked the prevalent friend and adversarial relationships in social networks.This paper addresses this gap by focusing on source localization in signed network models.Leveraging the topological characteristics of signed networks and transforming the propagation probability into effective distance,we propose an optimization method for observer selection.Additionally,by using the reverse propagation algorithm we present a method for information source localization in signed networks.Extensive experimental results demonstrate that a higher proportion of positive edges within signed networks contributes to more favorable source localization,and the higher the ratio of propagation rates between positive and negative edges,the more accurate the source localization becomes.Interestingly,this aligns with our observation that,in reality,the number of friends tends to be greater than the number of adversaries,and the likelihood of information propagation among friends is often higher than among adversaries.In addition,the source located at the periphery of the network is not easy to identify.Furthermore,our proposed observer selection method based on effective distance achieves higher operational efficiency and exhibits higher accuracy in information source localization,compared with three strategies for observer selection based on the classical full-order neighbor coverage.

Impact of different interaction behavior on epidemic spreading in time-dependent social networks

We investigate the impact of pairwise and group interactions on the spread of epidemics through an activity-driven model based on time-dependent networks.The effects of pairwise/group interaction proportion and pairwise/group interaction intensity are explored by extensive simulation and theoretical analysis.It is demonstrated that altering the group interaction proportion can either hinder or enhance the spread of epidemics,depending on the relative social intensity of group and pairwise interactions.As the group interaction proportion decreases,the impact of reducing group social intensity diminishes.The ratio of group and pairwise social intensity can affect the effect of group interaction proportion on the scale of infection.A weak heterogeneous activity distribution can raise the epidemic threshold,and reduce the scale of infection.These results benefit the design of epidemic control strategy.

Reliability Assessment of a New General Matching Composed Network

The reliability of a network is an important indicator for maintaining communication and ensuring its stable operation. Therefore, the assessment of reliability in underlying interconnection networks has become an increasingly important research issue. However, at present, the reliability assessment of many interconnected networks is not yet accurate,which inevitably weakens their fault tolerance and diagnostic capabilities. To improve network reliability,researchers have proposed various methods and strategies for precise assessment. This paper introduces a novel family of interconnection networks called general matching composed networks(gMCNs), which is based on the common characteristics of network topology structure. After analyzing the topological properties of gMCNs, we establish a relationship between super connectivity and conditional diagnosability of gMCNs. Furthermore, we assess the reliability of g MCNs, and determine the conditional diagnosability of many interconnection networks.

A new centrality measure based on neighbor loop structure for network dismantling

Nearly all real-world networks are complex networks and usually are in danger of collapse.Therefore,it is crucial to exploit and understand the mechanisms of network attacks and provide better protection for network functionalities.Network dismantling aims to find the smallest set of nodes such that after their removal the network is broken into connected components of sub-extensive size.To overcome the limitations and drawbacks of existing network dismantling methods,this paper focuses on network dismantling problem and proposes a neighbor-loop structure based centrality metric,NL,which achieves a balance between computational efficiency and evaluation accuracy.In addition,we design a novel method combining NL-based nodes-removing,greedy tree-breaking and reinsertion.Moreover,we compare five baseline methods with our algorithm on ten widely used real-world networks and three types of model networks including Erd€os-Renyi random networks,Watts-Strogatz smallworld networks and Barabasi-Albert scale-free networks with different network generation parameters.Experimental results demonstrate that our proposed method outperforms most peer methods by obtaining a minimal set of targeted attack nodes.Furthermore,the insights gained from this study may be of assistance to future practical research into real-world networks.

Migration Networks Pattern of China’s Floating Population from the Perspective of Complex Network

Since China’s reform and opening-up,the growing disparity between urban and rural areas and regions has led to massive migration.With China’s Rural Revitalization Strategy and the industrial transfer from the eastern coastal areas to the inland,the migration direction and pattern of the floating population have undergone certain changes.Using the 2017 China Migrants Dynamic Survey(CMDS),excluding Hong Kong,Macao,and Taiwan regions of China,organized by China’s National Health Commission,the relationship matrix of the floating population is constructed according to the inflow place of the interviewees and their outflow place(the location of the registered residence)in the questionnaire survey.We then apply the complex network model to analyze the migration direction and network pattern of China’s floating population from the city scale.The migration network shows an obvious hierarchical agglomeration.The first-,second-,third-and fourth-tier distribution cities are municipalities directly under the central government,provincial capital cities,major cities in the central and western regions and ordinary cities in all provinces,respectively.The migration trend is from the central and western regions to the eastern coastal areas.The migration network has‘small world’characteristics,forming nine communities.It shows that most node cities in the same community are closely linked and geographically close,indicating that the migration network of floating population is still affected by geographical proximity.Narrowing the urban-rural and regional differences will promote the rational distribution this population.It is necessary to strengthen the reform of the registered residence system,so that the floating population can enjoy urban public services comparable to other populations,and allow migrants to live and work in peace.

Innovation and Firm Co-ownership Network in China’s Electric Vehicle Industry

Firms are embedded in complex networks,where diverse ideas combine and generate new ideas.Shareholders of firms are of-ten seen as critical external resources that have significant influence on firm innovation.The current literature tends to focus on the rela-tionship between firms and their shareholders,while paying less attention to the connections between firms with the same shareholders.This article identifies two types of network spillover effects,intra-city network effect and inter-city network effect,by visualizing the co-ownership networks in China’s electric vehicle(EV)industry.We find that firms with the same shareholders,which are defined as co-owned EV firms,are more innovative than non-co-owned ones.Furthermore,there are two dominant types of firm co-ownership ties formed by corporate and financial institution shareholders.While corporate shareholders help exploiting local tacit knowledge,financial institutions are more active in bridging inter-city connections.The conclusion is confirmed at both firm and city levels.This paper theor-izes the firm co-ownership network as a new form of institutional proximity and tested the result empirically.For policy consideration,we have emphasized the importance of building formal or informal inter-firm network,and the government should further enhance the knowledge flow channel by institutional construction.

Jaya Honey Badger optimization- based deep neuro-fuzzy network structure for detection of (SARS- CoV) Covid-19 disease by using respiratory sound signals

Purpose-The Covid 19 prediction process is more indispensable to handle the spread and deathocurred rate because of Covid-19.However early and precise prediction of Covid-19 is more difcult because of different sizes and resolutions of input image Thus these challenges and problems experienced by traditional Covid-19 detection methods are considered as major motivation to develop JHBO-based DNFN.Design/methodology/approach-The major contribution of this research is to desigm an ffectualCovid-19 detection model using devised JHBObased DNFN,Here,the audio signal is considered as input for detecting Covid-19.The Gaussian filter is applied to input signal for removing the noises and then feature extraction is performed.The substantial features,like spectral rlloff.spectral bandwidth,Mel-frequency,cepstral coefficients (MFCC),spectral flatness,zero crossing rate,spectral centroid,mean square energy and spectral contract are extracted for further processing.Finally,DNFN is applied for detecting Covid 19 and the deep leaning model is trained by designed JHBO algorithm.Accordingly.the developed JHBO method is newly desigmed by inoorporating Honey Badger optimization Algorithm(HBA)and.Jaya algorithm.Findings-The performance of proposed hybrid optimization-based deep learming algorithm is estimated by meansof twoperformance metrics,namely testing accuracy,sensitivity and speificity of 09176,09218 and 09219.Research limitations/implications-The JHBO-based DNFN approach is developed for Covid-19 detection.The developed approach can be extended by including other hybrid optimization algorithms as well as other features can be extracted for further improving the detection performance.Practical implications-The proposed Covid-19 detection method is useful in various applications,like medical and so on,Originality/value-Developed JHBO-enabled DNFN for Covid-19 detection:An effective Covid-19 detection technique is introduced based on hybrid optimization-driven deep learning model The DNFN is used for detecting Covid-19,which classifies the feature vector as Covid-19 or non-Covid 19.Moreover,the DNFN is trained by devised JHB0 approach,which is introduced by combining HBA and Jaya algorithm.

Threshold-Based Software-Defined Networking(SDN)Solution for Healthcare Systems against Intrusion Attacks

The healthcare sector holds valuable and sensitive data.The amount of this data and the need to handle,exchange,and protect it,has been increasing at a fast pace.Due to their nature,software-defined networks(SDNs)are widely used in healthcare systems,as they ensure effective resource utilization,safety,great network management,and monitoring.In this sector,due to the value of thedata,SDNs faceamajor challengeposed byawide range of attacks,such as distributed denial of service(DDoS)and probe attacks.These attacks reduce network performance,causing the degradation of different key performance indicators(KPIs)or,in the worst cases,a network failure which can threaten human lives.This can be significant,especially with the current expansion of portable healthcare that supports mobile and wireless devices for what is called mobile health,or m-health.In this study,we examine the effectiveness of using SDNs for defense against DDoS,as well as their effects on different network KPIs under various scenarios.We propose a threshold-based DDoS classifier(TBDC)technique to classify DDoS attacks in healthcare SDNs,aiming to block traffic considered a hazard in the form of a DDoS attack.We then evaluate the accuracy and performance of the proposed TBDC approach.Our technique shows outstanding performance,increasing the mean throughput by 190.3%,reducing the mean delay by 95%,and reducing packet loss by 99.7%relative to normal,with DDoS attack traffic.