Evaluating the performance of genomic selection on purebred population by incorporating crossbred data in pigs

Genomic selection(GS)has been widely used in livestock,which greatly accelerated the genetic progress of complex traits.The population size was one of the significant factors affecting the prediction accuracy,while it was limited by the purebred population.Compared to directly combining two uncorrelated purebred populations to extend the reference population size,it might be more meaningful to incorporate the correlated crossbreds into reference population for genomic prediction.In this study,we simulated purebred offspring(PAS and PBS)and crossbred offspring(CAB)base on real genotype data of two base purebred populations(PA and PB),to evaluate the performance of genomic selection on purebred while incorporating crossbred information.The results showed that selecting key crossbred individuals via maximizing the expected genetic relationship(REL)was better than the other methods(individuals closet or farthest to the purebred population,CP/FP)in term of the prediction accuracy.Furthermore,the prediction accuracy of reference populations combining PA and CAB was significantly better only based on PA,which was similar to combine PA and PAS.Moreover,the rank correlation between the multiple of the increased relationship(MIR)and reliability improvement was 0.60-0.70.But for individuals with low correlation(Cor(Pi,PA or B),the reliability improvement was significantly lower than other individuals.Our findings suggested that incorporating crossbred into purebred population could improve the performance of genetic prediction compared with using the purebred population only.The genetic relationship between purebred and crossbred population is a key factor determining the increased reliability while incorporating crossbred population in the genomic prediction on pure bred individuals.

A Federated Learning Framework with Blockchain-Based Auditable Participant Selection

Federated learning is an important distributed model training technique in Internet of Things(IoT),in which participant selection is a key component that plays a role in improving training efficiency and model accuracy.This module enables a central server to select a subset of participants to performmodel training based on data and device information.By doing so,selected participants are rewarded and actively perform model training,while participants that are detrimental to training efficiency and model accuracy are excluded.However,in practice,participants may suspect that the central server may have miscalculated and thus not made the selection honestly.This lack of trustworthiness problem,which can demotivate participants,has received little attention.Another problem that has received little attention is the leakage of participants’private information during the selection process.We will therefore propose a federated learning framework with auditable participant selection.It supports smart contracts in selecting a set of suitable participants based on their training loss without compromising the privacy.Considering the possibility of malicious campaigning and impersonation of participants,the framework employs commitment schemes and zero-knowledge proofs to counteract these malicious behaviors.Finally,we analyze the security of the framework and conduct a series of experiments to demonstrate that the framework can effectively improve the efficiency of federated learning.

The suitability assessment on site selection for bottom seeding scallop culture based on analytic hierarchy process

Scallop culture is an important way of bottom-seeding marine ranching,which is of great significance to improve the current situation of fishery resources.However,there are some problems in site-selection evaluation of marine ranching,such as imperfect criteria system,complex structure,untargeted criteria quantification,etc.In addition,no site-selection evaluation method of bottom-seeding culture areas for scallops is available.Therefore,we established a hierarchy structure model according to the analytic hierarchy process(AHP)theory,in which social,physical,chemical,and biological environments are used as main criteria,and marine functional zonation,water depth,current,water temperature,salinity,substrate type,water quality,sediment quality,red tide,phytoplankton,and zooplankton are used as sub-criteria,on which a multi-parameter evaluation system is set up.Meanwhile,the dualism method,assignment method,and membership function method were used to quantify sub-criteria,and a quantitative evaluation for the entire criteria was added,including the evaluation and analysis of two types of unsuitable environmental situations.By overall consideration in scallop yield,quality,and marine ranching construction objectives,the weight of the main criteria could be determined.Five grades in the suitability corresponding to the evaluation result were divided,and the Python language was used to create an evaluation system for efficient calculation and intuitive presentation of the evaluation outcome.Eight marine cases were simulated based on existing survey data,and the results prove that the method is feasible for evaluating and analyzing the site selection of bottom-seeding culture areas for scallops under various environmental situations.The proposed evaluation method can be promoted for the site selection of bottom-seeding marine ranching.This study provided theoretical and methodological references for the site selection evaluation of other types of marine ranching.

Comparison of debris flow susceptibility assessment methods:support vector machine,particle swarm optimization,and feature selection techniques

The selection of important factors in machine learning-based susceptibility assessments is crucial to obtain reliable susceptibility results.In this study,metaheuristic optimization and feature selection techniques were applied to identify the most important input parameters for mapping debris flow susceptibility in the southern mountain area of Chengde City in Hebei Province,China,by using machine learning algorithms.In total,133 historical debris flow records and 16 related factors were selected.The support vector machine(SVM)was first used as the base classifier,and then a hybrid model was introduced by a two-step process.First,the particle swarm optimization(PSO)algorithm was employed to select the SVM model hyperparameters.Second,two feature selection algorithms,namely principal component analysis(PCA)and PSO,were integrated into the PSO-based SVM model,which generated the PCA-PSO-SVM and FS-PSO-SVM models,respectively.Three statistical metrics(accuracy,recall,and specificity)and the area under the receiver operating characteristic curve(AUC)were employed to evaluate and validate the performance of the models.The results indicated that the feature selection-based models exhibited the best performance,followed by the PSO-based SVM and SVM models.Moreover,the performance of the FS-PSO-SVM model was better than that of the PCA-PSO-SVM model,showing the highest AUC,accuracy,recall,and specificity values in both the training and testing processes.It was found that the selection of optimal features is crucial to improving the reliability of debris flow susceptibility assessment results.Moreover,the PSO algorithm was found to be not only an effective tool for hyperparameter optimization,but also a useful feature selection algorithm to improve prediction accuracies of debris flow susceptibility by using machine learning algorithms.The high and very high debris flow susceptibility zone appropriately covers 38.01%of the study area,where debris flow may occur under intensive human activities and heavy rainfall events.

Analysis of environmental selection pressure of superoxide dismutase in deep-sea sea cucumber

Manganese superoxide dismutase(MnSOD)is an antioxidant that exists in mitochondria and can effectively remove superoxide anions in mitochondria.In a dark,high-pressure,and low-temperature deep-sea environment,MnSOD is essential for the survival of sea cucumbers.Six MnSODs were identified from the transcriptomes of deep and shallow-sea sea cucumbers.To explore their environmental adaptation mechanism,we conducted environmental selection pressure analysis through the branching site model of PAML software.We obtained night positive selection sites,and two of them were significant(97F→H,134K→V):97F→H located in a highly conservative characteristic sequence,and its polarity c hange might have a great impact on the function of MnSOD;134K→V had a change in piezophilic a bility,which might help MnSOD adapt to the environment of high hydrostatic pressure in the deepsea.To further study the effect of these two positive selection sites on MnSOD,we predicted the point mutations of F97H and K134V on shallow-sea sea cucumber by using MAESTROweb and PyMOL.Results show that 97F→H,134K→V might improve MnSOD’s efficiency of scavenging superoxide a nion and its ability to resist high hydrostatic pressure by moderately reducing its stability.The above results indicated that MnSODs of deep-sea sea cucumber adapted to deep-sea environments through their amino acid changes in polarity,piezophilic behavior,and local stability.This study revealed the correlation between MnSOD and extreme environment,and will help improve our understanding of the organism’s adaptation mechanisms in deep sea.

A Support Data-Based Core-Set Selection Method for Signal Recognition

In recent years,deep learning-based signal recognition technology has gained attention and emerged as an important approach for safeguarding the electromagnetic environment.However,training deep learning-based classifiers on large signal datasets with redundant samples requires significant memory and high costs.This paper proposes a support databased core-set selection method(SD)for signal recognition,aiming to screen a representative subset that approximates the large signal dataset.Specifically,this subset can be identified by employing the labeled information during the early stages of model training,as some training samples are labeled as supporting data frequently.This support data is crucial for model training and can be found using a border sample selector.Simulation results demonstrate that the SD method minimizes the impact on model recognition performance while reducing the dataset size,and outperforms five other state-of-the-art core-set selection methods when the fraction of training sample kept is less than or equal to 0.3 on the RML2016.04C dataset or 0.5 on the RML22 dataset.The SD method is particularly helpful for signal recognition tasks with limited memory and computing resources.

Physical and numerical investigations of target stratum selection for ground hydraulic fracturing of multiple hard roofs

Ground hydraulic fracturing plays a crucial role in controlling the far-field hard roof,making it imperative to identify the most suitable target stratum for effective control.Physical experiments are conducted based on engineering properties to simulate the gradual collapse of the roof during longwall top coal caving(LTCC).A numerical model is established using the material point method(MPM)and the strain-softening damage constitutive model according to the structure of the physical model.Numerical simulations are conducted to analyze the LTCC process under different hard roofs for ground hydraulic fracturing.The results show that ground hydraulic fracturing releases the energy and stress of the target stratum,resulting in a substantial lag in the fracturing of the overburden before collapse occurs in the hydraulic fracturing stratum.Ground hydraulic fracturing of a low hard roof reduces the lag effect of hydraulic fractures,dissipates the energy consumed by the fracture of the hard roof,and reduces the abutment stress.Therefore,it is advisable to prioritize the selection of the lower hard roof as the target stratum.

Cloud Datacenter Selection Using Service Broker Policies:A Survey

Amid the landscape of Cloud Computing(CC),the Cloud Datacenter(DC)stands as a conglomerate of physical servers,whose performance can be hindered by bottlenecks within the realm of proliferating CC services.A linchpin in CC’s performance,the Cloud Service Broker(CSB),orchestrates DC selection.Failure to adroitly route user requests with suitable DCs transforms the CSB into a bottleneck,endangering service quality.To tackle this,deploying an efficient CSB policy becomes imperative,optimizing DC selection to meet stringent Qualityof-Service(QoS)demands.Amidst numerous CSB policies,their implementation grapples with challenges like costs and availability.This article undertakes a holistic review of diverse CSB policies,concurrently surveying the predicaments confronted by current policies.The foremost objective is to pinpoint research gaps and remedies to invigorate future policy development.Additionally,it extensively clarifies various DC selection methodologies employed in CC,enriching practitioners and researchers alike.Employing synthetic analysis,the article systematically assesses and compares myriad DC selection techniques.These analytical insights equip decision-makers with a pragmatic framework to discern the apt technique for their needs.In summation,this discourse resoundingly underscores the paramount importance of adept CSB policies in DC selection,highlighting the imperative role of efficient CSB policies in optimizing CC performance.By emphasizing the significance of these policies and their modeling implications,the article contributes to both the general modeling discourse and its practical applications in the CC domain.

Optimization-based mode selection scheme for OAM millimeter wave system in the off-axis misalignment case

Millimeter-wave transmission combined with Orbital Angular Momentum(OAM)has the advantage of reducing the loss of beam power and increasing the system capacity.However,to fulfill this advantage,the antennas at the transmitter and receiver must be parallel and coaxial;otherwise,the accuracy of mode detection at the receiver can be seriously influenced.In this paper,we design an OAM millimeter-wave communication system for overcoming the above limitation.Specifically,the first contribution is that the power distribution between different OAM modes and the capacity of the system with different mode sets are analytically derived for performance analysis.The second contribution lies in that a novel mode selection scheme is proposed to reduce the total interference between different modes.Numerical results show that system performance is less affected by the offset when the mode set with smaller modes or larger intervals is selected.

Multi-Objective Equilibrium Optimizer for Feature Selection in High-Dimensional English Speech Emotion Recognition

Speech emotion recognition(SER)uses acoustic analysis to find features for emotion recognition and examines variations in voice that are caused by emotions.The number of features acquired with acoustic analysis is extremely high,so we introduce a hybrid filter-wrapper feature selection algorithm based on an improved equilibrium optimizer for constructing an emotion recognition system.The proposed algorithm implements multi-objective emotion recognition with the minimum number of selected features and maximum accuracy.First,we use the information gain and Fisher Score to sort the features extracted from signals.Then,we employ a multi-objective ranking method to evaluate these features and assign different importance to them.Features with high rankings have a large probability of being selected.Finally,we propose a repair strategy to address the problem of duplicate solutions in multi-objective feature selection,which can improve the diversity of solutions and avoid falling into local traps.Using random forest and K-nearest neighbor classifiers,four English speech emotion datasets are employed to test the proposed algorithm(MBEO)as well as other multi-objective emotion identification techniques.The results illustrate that it performs well in inverted generational distance,hypervolume,Pareto solutions,and execution time,and MBEO is appropriate for high-dimensional English SER.

A Proposed Feature Selection Particle Swarm Optimization Adaptation for Intelligent Logistics--A Supply Chain Backlog Elimination Framework

The diversity of data sources resulted in seeking effective manipulation and dissemination.The challenge that arises from the increasing dimensionality has a negative effect on the computation performance,efficiency,and stability of computing.One of the most successful optimization algorithms is Particle Swarm Optimization(PSO)which has proved its effectiveness in exploring the highest influencing features in the search space based on its fast convergence and the ability to utilize a small set of parameters in the search task.This research proposes an effective enhancement of PSO that tackles the challenge of randomness search which directly enhances PSO performance.On the other hand,this research proposes a generic intelligent framework for early prediction of orders delay and eliminate orders backlogs which could be considered as an efficient potential solution for raising the supply chain performance.The proposed adapted algorithm has been applied to a supply chain dataset which minimized the features set from twenty-one features to ten significant features.To confirm the proposed algorithm results,the updated data has been examined by eight of the well-known classification algorithms which reached a minimum accuracy percentage equal to 94.3%for random forest and a maximum of 99.0 for Naïve Bayes.Moreover,the proposed algorithm adaptation has been compared with other proposed adaptations of PSO from the literature over different datasets.The proposed PSO adaptation reached a higher accuracy compared with the literature ranging from 97.8 to 99.36 which also proved the advancement of the current research.

Suboptimal Feature Selection Techniques for Effective Malicious Traffic Detection on Lightweight Devices

With the advancement of wireless network technology,vast amounts of traffic have been generated,and malicious traffic attacks that threaten the network environment are becoming increasingly sophisticated.While signature-based detection methods,static analysis,and dynamic analysis techniques have been previously explored for malicious traffic detection,they have limitations in identifying diversified malware traffic patterns.Recent research has been focused on the application of machine learning to detect these patterns.However,applying machine learning to lightweight devices like IoT devices is challenging because of the high computational demands and complexity involved in the learning process.In this study,we examined methods for effectively utilizing machine learning-based malicious traffic detection approaches for lightweight devices.We introduced the suboptimal feature selection model(SFSM),a feature selection technique designed to reduce complexity while maintaining the effectiveness of malicious traffic detection.Detection performance was evaluated on various malicious traffic,benign,exploits,and generic,using the UNSW-NB15 dataset and SFSM sub-optimized hyperparameters for feature selection and narrowed the search scope to encompass all features.SFSM improved learning performance while minimizing complexity by considering feature selection and exhaustive search as two steps,a problem not considered in conventional models.Our experimental results showed that the detection accuracy was improved by approximately 20%compared to the random model,and the reduction in accuracy compared to the greedy model,which performs an exhaustive search on all features,was kept within 6%.Additionally,latency and complexity were reduced by approximately 96%and 99.78%,respectively,compared to the greedy model.This study demonstrates that malicious traffic can be effectively detected even in lightweight device environments.SFSM verified the possibility of detecting various attack traffic on lightweight devices.

Robust adaptive radar beamforming based on iterative training sample selection using kurtosis of generalized inner product statistics

In engineering application,there is only one adaptive weights estimated by most of traditional early warning radars for adaptive interference suppression in a pulse reputation interval(PRI).Therefore,if the training samples used to calculate the weight vector does not contain the jamming,then the jamming cannot be removed by adaptive spatial filtering.If the weight vector is constantly updated in the range dimension,the training data may contain target echo signals,resulting in signal cancellation effect.To cope with the situation that the training samples are contaminated by target signal,an iterative training sample selection method based on non-homogeneous detector(NHD)is proposed in this paper for updating the weight vector in entire range dimension.The principle is presented,and the validity is proven by simulation results.

Genomic signatures of selection,local adaptation and production type characterisation of East Adriatic sheep breeds

Background The importance of sheep breeding in the Mediterranean part of the eastern Adriatic has a long tradition since its arrival during the Neolithic migrations.Sheep production system is extensive and generally carried out in traditional systems without intensive systematic breeding programmes for high uniform trait production(carcass,wool and milk yield).Therefore,eight indigenous Croatian sheep breeds from eastern Adriatic treated here as metapopulation(EAS),are generally considered as multipurpose breeds(milk,meat and wool),not specialised for a particular type of production,but known for their robustness and resistance to certain environmental conditions.Our objective was to identify genomic regions and genes that exhibit patterns of positive selection signatures,decipher their biological and productive functionality,and provide a"genomic"characterization of EAS adaptation and determine its production type.Results We identified positive selection signatures in EAS using several methods based on reduced local variation,linkage disequilibrium and site frequency spectrum(eROHi,iHS,nSL and CLR).Our analyses identified numerous genomic regions and genes(e.g.,desmosomal cadherin and desmoglein gene families)associated with environmental adaptation and economically important traits.Most candidate genes were related to meat/production and health/immune response traits,while some of the candidate genes discovered were important for domestication and evolutionary processes(e.g.,HOXa gene family and FSIP2).These results were also confirmed by GO and QTL enrichment analysis.Conclusions Our results contribute to a better understanding of the unique adaptive genetic architecture of EAS and define its productive type,ultimately providing a new opportunity for future breeding programmes.At the same time,the numerous genes identified will improve our understanding of ruminant(sheep)robustness and resistance in the harsh and specific Mediterranean environment.

Assessment of molecular markers and marker-assisted selection for drought tolerance in barley(Hordeum vulgare L.)

This review updates the present status of the field of molecular markers and marker-assisted selection(MAS),using the example of drought tolerance in barley.The accuracy of selected quantitative trait loci(QTLs),candidate genes and suggested markers was assessed in the barley genome cv.Morex.Six common strategies are described for molecular marker development,candidate gene identification and verification,and their possible applications in MAS to improve the grain yield and yield components in barley under drought stress.These strategies are based on the following five principles:(1)Molecular markers are designated as genomic‘tags’,and their‘prediction’is strongly dependent on their distance from a candidate gene on genetic or physical maps;(2)plants react differently under favourable and stressful conditions or depending on their stage of development;(3)each candidate gene must be verified by confirming its expression in the relevant conditions,e.g.,drought;(4)the molecular marker identified must be validated for MAS for tolerance to drought stress and improved grain yield;and(5)the small number of molecular markers realized for MAS in breeding,from among the many studies targeting candidate genes,can be explained by the complex nature of drought stress,and multiple stress-responsive genes in each barley genotype that are expressed differentially depending on many other factors.

Constrained Multi-Objective Optimization With Deep Reinforcement Learning Assisted Operator Selection

Solving constrained multi-objective optimization problems with evolutionary algorithms has attracted considerable attention.Various constrained multi-objective optimization evolutionary algorithms(CMOEAs)have been developed with the use of different algorithmic strategies,evolutionary operators,and constraint-handling techniques.The performance of CMOEAs may be heavily dependent on the operators used,however,it is usually difficult to select suitable operators for the problem at hand.Hence,improving operator selection is promising and necessary for CMOEAs.This work proposes an online operator selection framework assisted by Deep Reinforcement Learning.The dynamics of the population,including convergence,diversity,and feasibility,are regarded as the state;the candidate operators are considered as actions;and the improvement of the population state is treated as the reward.By using a Q-network to learn a policy to estimate the Q-values of all actions,the proposed approach can adaptively select an operator that maximizes the improvement of the population according to the current state and thereby improve the algorithmic performance.The framework is embedded into four popular CMOEAs and assessed on 42 benchmark problems.The experimental results reveal that the proposed Deep Reinforcement Learning-assisted operator selection significantly improves the performance of these CMOEAs and the resulting algorithm obtains better versatility compared to nine state-of-the-art CMOEAs.

A Heuristic Radiomics Feature Selection Method Based on Frequency Iteration and Multi-Supervised Training Mode

Radiomics is a non-invasive method for extracting quantitative and higher-dimensional features from medical images for diagnosis.It has received great attention due to its huge application prospects in recent years.We can know that the number of features selected by the existing radiomics feature selectionmethods is basically about ten.In this paper,a heuristic feature selection method based on frequency iteration and multiple supervised training mode is proposed.Based on the combination between features,it decomposes all features layer by layer to select the optimal features for each layer,then fuses the optimal features to form a local optimal group layer by layer and iterates to the global optimal combination finally.Compared with the currentmethod with the best prediction performance in the three data sets,thismethod proposed in this paper can reduce the number of features fromabout ten to about three without losing classification accuracy and even significantly improving classification accuracy.The proposed method has better interpretability and generalization ability,which gives it great potential in the feature selection of radiomics.

Multi-Strategy Assisted Multi-Objective Whale Optimization Algorithm for Feature Selection

In classification problems,datasets often contain a large amount of features,but not all of them are relevant for accurate classification.In fact,irrelevant features may even hinder classification accuracy.Feature selection aims to alleviate this issue by minimizing the number of features in the subset while simultaneously minimizing the classification error rate.Single-objective optimization approaches employ an evaluation function designed as an aggregate function with a parameter,but the results obtained depend on the value of the parameter.To eliminate this parameter’s influence,the problem can be reformulated as a multi-objective optimization problem.The Whale Optimization Algorithm(WOA)is widely used in optimization problems because of its simplicity and easy implementation.In this paper,we propose a multi-strategy assisted multi-objective WOA(MSMOWOA)to address feature selection.To enhance the algorithm’s search ability,we integrate multiple strategies such as Levy flight,Grey Wolf Optimizer,and adaptive mutation into it.Additionally,we utilize an external repository to store non-dominant solution sets and grid technology is used to maintain diversity.Results on fourteen University of California Irvine(UCI)datasets demonstrate that our proposed method effectively removes redundant features and improves classification performance.The source code can be accessed from the website:https://github.com/zc0315/MSMOWOA.

Enhancing Cancer Classification through a Hybrid Bio-Inspired Evolutionary Algorithm for Biomarker Gene Selection

In this study,our aim is to address the problem of gene selection by proposing a hybrid bio-inspired evolutionary algorithm that combines Grey Wolf Optimization(GWO)with Harris Hawks Optimization(HHO)for feature selection.Themotivation for utilizingGWOandHHOstems fromtheir bio-inspired nature and their demonstrated success in optimization problems.We aimto leverage the strengths of these algorithms to enhance the effectiveness of feature selection in microarray-based cancer classification.We selected leave-one-out cross-validation(LOOCV)to evaluate the performance of both two widely used classifiers,k-nearest neighbors(KNN)and support vector machine(SVM),on high-dimensional cancer microarray data.The proposed method is extensively tested on six publicly available cancer microarray datasets,and a comprehensive comparison with recently published methods is conducted.Our hybrid algorithm demonstrates its effectiveness in improving classification performance,Surpassing alternative approaches in terms of precision.The outcomes confirm the capability of our method to substantially improve both the precision and efficiency of cancer classification,thereby advancing the development ofmore efficient treatment strategies.The proposed hybridmethod offers a promising solution to the gene selection problem in microarray-based cancer classification.It improves the accuracy and efficiency of cancer diagnosis and treatment,and its superior performance compared to other methods highlights its potential applicability in realworld cancer classification tasks.By harnessing the complementary search mechanisms of GWO and HHO,we leverage their bio-inspired behavior to identify informative genes relevant to cancer diagnosis and treatment.

CL2ES-KDBC:A Novel Covariance Embedded Selection Based on Kernel Distributed Bayes Classifier for Detection of Cyber-Attacks in IoT Systems

The Internet of Things(IoT)is a growing technology that allows the sharing of data with other devices across wireless networks.Specifically,IoT systems are vulnerable to cyberattacks due to its opennes The proposed work intends to implement a new security framework for detecting the most specific and harmful intrusions in IoT networks.In this framework,a Covariance Linear Learning Embedding Selection(CL2ES)methodology is used at first to extract the features highly associated with the IoT intrusions.Then,the Kernel Distributed Bayes Classifier(KDBC)is created to forecast attacks based on the probability distribution value precisely.In addition,a unique Mongolian Gazellas Optimization(MGO)algorithm is used to optimize the weight value for the learning of the classifier.The effectiveness of the proposed CL2ES-KDBC framework has been assessed using several IoT cyber-attack datasets,The obtained results are then compared with current classification methods regarding accuracy(97%),precision(96.5%),and other factors.Computational analysis of the CL2ES-KDBC system on IoT intrusion datasets is performed,which provides valuable insight into its performance,efficiency,and suitability for securing IoT networks.