Background:There is growing evidence indicating that the microbial communities that dwell on the human ocular surface are crucially important for ocular surface health and disease.Little is known about interspecies in...Background:There is growing evidence indicating that the microbial communities that dwell on the human ocular surface are crucially important for ocular surface health and disease.Little is known about interspecies interactions,functional profiles,and strain heterogeneity across individuals in healthy ocular surface microbiomes.Methods:To comprehensively characterize the strain heterogeneity,cooccurrence network,taxonomic composition and functional profile of the healthy ocular surface microbiome,we performed shotgun metagenomics sequencing on ocular surface mucosal membrane swabs of 17 healthy volunteers.Results:The healthy ocular surface microbiome was classified into 12 phyla,70 genera,and 140 species.The number of species in each healthy ocular surface microbiome ranged from 6 to 47,indicating differences in microbial diversity among individuals.The species with high relative abundances and high positivity rates were Streptococcus pyogenes,Staphylococcus epidermidis,Propionibacterium acnes,Corynebacterium accolens,and Enhydrobacter aerosaccus.A correlation network analysis revealed a competitive interaction of Staphylococcus epidermidis with Streptococcus pyogenes in ocular surface microbial ecosystems.Staphylococcus epidermidis and Streptococcus pyogenes revealed phylogenetic diversity among different individuals.At the functional level,the pathways related to transcription were the most abundant.We also found that there were abundant lipid and amino acid metabolism pathways in the healthy ocular surface microbiome.Conclusion:This study explored the strain heterogeneity,cooccurrence network,taxonomic composition,and functional profile of the healthy ocular surface microbiome.These findings have important significance for the future development of probiotic-based eye therapeutic drugs.展开更多
Alfalfa is a perennial herbaceous forage legume that is remarkably and negatively affected by monocropping.However,the contribution of the changes in bacterial communities to soil sickness in alfalfa have not been elu...Alfalfa is a perennial herbaceous forage legume that is remarkably and negatively affected by monocropping.However,the contribution of the changes in bacterial communities to soil sickness in alfalfa have not been elucidated.Therefore,we investigated bacterial community structures in response to monocropped alfalfa along the chronosequence.Continuous cropping remarkably reduced bacterial alpha diversity and altered community structures,and soil pH,total P and available P were strongly associated with the changes of bacterial diversity and community structures.Intriguingly,10 years of monocropped alfalfa might be a demarcation point separating soil bacterial community structures into two obvious groups that containing soil samples collected in less and more than 10 years.The relative abundances of copiotrophic bacteria of Actinobacteria and Gammaproteobacteria significantly increased with the extension of continuous cropping years,while the oligotrophic bacteria of Armatimonadetes,Chloroflexi,Firmicutes and Gemmatimonadetes showed the opposite changing patterns.Among those altered phyla,Actinobacteria,Chloroflexi,Alphaproteobacteria and Acidobacteria were the most important bacteria which contributed 50.86%of the community variations. Additionally, the relative abundances of nitrogen fixation bacteria ofBradyrhizobium and Mesorhizobium obviously increased with continuous cropping years, while theabundances of Arthrobacter, Bacillus, Burkholderiaceae and Microbacterium with potential functionsof solubilizing phosphorus and potassium remarkably decreased after long-term continuouscropping. Furthermore, bacterial cooccurrence patterns were significantly influenced by continuouscropping years, with long-term monocropped alfalfa simplifying the complexity of the cooccurrencenetworks. These findings enhanced our understandings and provided references for forecasting howsoil bacterial communities responds to monocropped alfalfa.展开更多
Liver cancer is the second leading cause of cancer death worldwide.Early tumor detection may help identify suitable treatment and increase the survival rate.Medical imaging is a non-invasive tool that can help uncover...Liver cancer is the second leading cause of cancer death worldwide.Early tumor detection may help identify suitable treatment and increase the survival rate.Medical imaging is a non-invasive tool that can help uncover abnormalities in human organs.Magnetic Resonance Imaging(MRI),in particular,uses magnetic fields and radio waves to differentiate internal human organs tissue.However,the interpretation of medical images requires the subjective expertise of a radiologist and oncologist.Thus,building an automated diagnosis computer-based system can help specialists reduce incorrect diagnoses.This paper proposes a hybrid automated system to compare the performance of 3D features and 2D features in classifying magnetic resonance liver tumor images.This paper proposed two models;the first one employed the 3D features while the second exploited the 2D features.The first system uses 3D texture attributes,3D shape features,and 3D graphical deep descriptors beside an ensemble classifier to differentiate between four 3D tumor categories.On top of that,the proposed method is applied to 2D slices for comparison purposes.The proposed approach attained 100%accuracy in discriminating between all types of tumors,100%Area Under the Curve(AUC),100%sensitivity,and 100%specificity and precision as well in 3D liver tumors.On the other hand,the performance is lower in 2D classification.The maximum accuracy reached 96.4%for two classes and 92.1%for four classes.The top-class performance of the proposed system can be attributed to the exploitation of various types of feature selection methods besides utilizing the ReliefF features selection technique to choose the most relevant features associated with different classes.The novelty of this work appeared in building a highly accurate system under specific circumstances without any processing for the images and human input,besides comparing the performance between 2D and 3D classification.In the future,the presented work can be extended to be used in the huge dataset.Then,it can be a reliable,efficient Computer Aided Diagnosis(CAD)system employed in hospitals in rural areas.展开更多
BACKGROUND The most important consideration in determining treatment strategies for undifferentiated early gastric cancer(UEGC)is the risk of lymph node metastasis(LNM).Therefore,identifying a potential biomarker that...BACKGROUND The most important consideration in determining treatment strategies for undifferentiated early gastric cancer(UEGC)is the risk of lymph node metastasis(LNM).Therefore,identifying a potential biomarker that predicts LNM is quite useful in determining treatment.AIM To develop a machine learning(ML)-based integral procedure to construct the LNM gray-level co-occurrence matrix(GLCM)prediction model.METHODS We retrospectively selected 526 cases of UEGC confirmed through pathological examination after radical gastrectomy without endoscopic treatment in four tertiary hospitals between January 2015 to December 2021.We extracted GLCM-based features from grayscale images and applied ML to the classification of candidate predictive variables.The robustness and clinical utility of each model were evaluated based on the following factors:Receiver operating characteristic curve(ROC),decision curve analysis,and clinical impact curve.RESULTS GLCM-based feature extraction significantly correlated with LNM.The top 7 GLCM-based factors included inertia value 0°(IV_0),inertia value 45°(IV_45),inverse gap 0°(IG_0),inverse gap 45°(IG_45),inverse gap full angle(IG_all),Haralick 30°(Haralick_30),Haralick full angle(Haralick_all),and Entropy.The areas under the ROC curve(AUCs)of the random forest classifier(RFC)model,support vector machine,eXtreme gradient boosting,artificial neural network,and decision tree ranged from 0.805[95%confidence interval(CI):0.258-1.352]to 0.925(95%CI:0.378-1.472)in the training set and from 0.794(95%CI:0.237-1.351)to 0.912(95%CI:0.355-1.469)in the testing set,respectively.The RFC(training set:AUC:0.925,95%CI:0.378-1.472;testing set:AUC:0.912,95%CI:0.355-1.469)model that incorporates Entropy,Haralick_all,Haralick_30,IG_all,IG_45,IG_0,and IV_45 had the highest predictive accuracy.CONCLUSION The evaluation results indicate that the method of selecting radiological and textural features becomes more effective in the LNM discrimination against UEGC patients.Additionally,the MLbased prediction model developed using the RFC can be used to derive treatment options and identify LNM,which can hence improve clinical outcomes.展开更多
Co-occurrence matrices have been successfully applied in texture classification and segmentation.However,they have poor computation performance in real-time application.In this paper,the efficient co-occurrence matrix...Co-occurrence matrices have been successfully applied in texture classification and segmentation.However,they have poor computation performance in real-time application.In this paper,the efficient co-occurrence matrix solution for defect detection is focused on,and a method of Fuzzy Label Co-occurrence Matrix (FLCM) set is proposed.In this method,all gray levels are supposed to subject to some fuzzy sets called fuzzy tonal sets and three defective features are defined.Features of FLCM set with various parameters are combined for the final judgment.Unlike many methods,image acquired for learning hasn't to be entirely free of defects.It is shown that the method produces high accuracy and can be a competent candidate for plain colour fabric defect detection.展开更多
The use of massive image databases has increased drastically over the few years due to evolution of multimedia technology.Image retrieval has become one of the vital tools in image processing applications.Content-Base...The use of massive image databases has increased drastically over the few years due to evolution of multimedia technology.Image retrieval has become one of the vital tools in image processing applications.Content-Based Image Retrieval(CBIR)has been widely used in varied applications.But,the results produced by the usage of a single image feature are not satisfactory.So,multiple image features are used very often for attaining better results.But,fast and effective searching for relevant images from a database becomes a challenging task.In the previous existing system,the CBIR has used the combined feature extraction technique using color auto-correlogram,Rotation-Invariant Uniform Local Binary Patterns(RULBP)and local energy.However,the existing system does not provide significant results in terms of recall and precision.Also,the computational complexity is higher for the existing CBIR systems.In order to handle the above mentioned issues,the Gray Level Co-occurrence Matrix(GLCM)with Deep Learning based Enhanced Convolution Neural Network(DLECNN)is proposed in this work.The proposed system framework includes noise reduction using histogram equalization,feature extraction using GLCM,similarity matching computation using Hierarchal and Fuzzy c-Means(HFCM)algorithm and the image retrieval using DLECNN algorithm.The histogram equalization has been used for computing the image enhancement.This enhanced image has a uniform histogram.Then,the GLCM method has been used to extract the features such as shape,texture,colour,annotations and keywords.The HFCM similarity measure is used for computing the query image vector's similarity index with every database images.For enhancing the performance of this image retrieval approach,the DLECNN algorithm is proposed to retrieve more accurate features of the image.The proposed GLCM+DLECNN algorithm provides better results associated with high accuracy,precision,recall,f-measure and lesser complexity.From the experimental results,it is clearly observed that the proposed system provides efficient image retrieval for the given query image.展开更多
With the rapid development of communication and computer,the individual identification technology of communication equipment has been brought to many application scenarios.The identification of the same type of electr...With the rapid development of communication and computer,the individual identification technology of communication equipment has been brought to many application scenarios.The identification of the same type of electronic equipment is of considerable significance,whether it is the identification of friend or foe in military applications,identity determination,radio spectrum management in civil applications,equipment fault diagnosis,and so on.Because of the limited-expression ability of the traditional electromagnetic signal representation methods in the face of complex signals,a new method of individual identification of the same equipment of communication equipment based on deep learning is proposed.The contents of this paper include the following aspects:(1)Considering the shortcomings of deep learning in processing small sample data,this paper provides a universal and robust feature template for signal data.This paper constructs a relatively complete signal template library from multiple perspectives,such as time domain and transform domain features,combined with high-order statistical analysis.Based on the inspiration of the image texture feature,characteristics of amplitude histogram of signal and the signal amplitude co-occurrence matrix(SACM)are proposed in this paper.These signal features can be used as a signal fingerprint template for individual identification.(2)Considering the limitation of the recognition rate of a single classifier,using the integrated classifier has achieved better generalization ability.The final average accuracy of 5 NRF24LE1 modules is up to 98%and solved the problem of individual identification of the same equipment of communication equipment under the condition of the small sample,low signal-to-noise ratio.展开更多
The development of high-resolution remote sensing imaging technology provides a new way to the large-scale estimation of forest canopy density. The traditional inversion methods for canopy density only use spectral or...The development of high-resolution remote sensing imaging technology provides a new way to the large-scale estimation of forest canopy density. The traditional inversion methods for canopy density only use spectral or topographical features of remote sensing images.However,due to the existence of the different thing with same spectrum and the same thing with different spectrum phenomena,it is difficult to improve the estimation accuracy of canopy density.Based on spectrum and other traditional features,this paper combines texture features of remote sensing images to estimate canopy density.Firstly,the gray level co-occurrence matrix (GLCM) texture features are computed using objectbased method.Then,the principal component analysis (PCA) method is applied in correlation analysis and dimension reduction of texture features.Finally, spectrum and topographical features together with texture features are introduced into stepwise regression model to estimate canopy density.The experimental results showed that compared with the traditional method only based on spectrum or topographical features,the method combined with texture features greatly improved the estimation accuracy.The coefficient of determination(adjusted R^2 ) increased from 0.737 to 0.805.The estimation accuracy increased from 81.03%to 84.32%.展开更多
基金supported by the National Science and Technology Major Project(Grant No.2018ZX10201001).
文摘Background:There is growing evidence indicating that the microbial communities that dwell on the human ocular surface are crucially important for ocular surface health and disease.Little is known about interspecies interactions,functional profiles,and strain heterogeneity across individuals in healthy ocular surface microbiomes.Methods:To comprehensively characterize the strain heterogeneity,cooccurrence network,taxonomic composition and functional profile of the healthy ocular surface microbiome,we performed shotgun metagenomics sequencing on ocular surface mucosal membrane swabs of 17 healthy volunteers.Results:The healthy ocular surface microbiome was classified into 12 phyla,70 genera,and 140 species.The number of species in each healthy ocular surface microbiome ranged from 6 to 47,indicating differences in microbial diversity among individuals.The species with high relative abundances and high positivity rates were Streptococcus pyogenes,Staphylococcus epidermidis,Propionibacterium acnes,Corynebacterium accolens,and Enhydrobacter aerosaccus.A correlation network analysis revealed a competitive interaction of Staphylococcus epidermidis with Streptococcus pyogenes in ocular surface microbial ecosystems.Staphylococcus epidermidis and Streptococcus pyogenes revealed phylogenetic diversity among different individuals.At the functional level,the pathways related to transcription were the most abundant.We also found that there were abundant lipid and amino acid metabolism pathways in the healthy ocular surface microbiome.Conclusion:This study explored the strain heterogeneity,cooccurrence network,taxonomic composition,and functional profile of the healthy ocular surface microbiome.These findings have important significance for the future development of probiotic-based eye therapeutic drugs.
基金This work was supported by grants from National Key Research and Development Program of China(2017YFD0200604)Key Research Program of Frontier Sciences,CAS(ZDBS-LYDQC017)+5 种基金the National Natural Science Foundation of China(41671251)Earmarked Fund for China Agriculture Research System(CR34)Heilongjiang Provincial Natural Science Foundation of China(D2018009)the Grass-field Rotation Scientist Studio of Heilongjiang Province(202004)Outstanding Youth Fund of Heilongjiang Academy of Agricultural Sciences(2020JCQN003)Youth Innovation Promotion Association,CAS(2017276).
文摘Alfalfa is a perennial herbaceous forage legume that is remarkably and negatively affected by monocropping.However,the contribution of the changes in bacterial communities to soil sickness in alfalfa have not been elucidated.Therefore,we investigated bacterial community structures in response to monocropped alfalfa along the chronosequence.Continuous cropping remarkably reduced bacterial alpha diversity and altered community structures,and soil pH,total P and available P were strongly associated with the changes of bacterial diversity and community structures.Intriguingly,10 years of monocropped alfalfa might be a demarcation point separating soil bacterial community structures into two obvious groups that containing soil samples collected in less and more than 10 years.The relative abundances of copiotrophic bacteria of Actinobacteria and Gammaproteobacteria significantly increased with the extension of continuous cropping years,while the oligotrophic bacteria of Armatimonadetes,Chloroflexi,Firmicutes and Gemmatimonadetes showed the opposite changing patterns.Among those altered phyla,Actinobacteria,Chloroflexi,Alphaproteobacteria and Acidobacteria were the most important bacteria which contributed 50.86%of the community variations. Additionally, the relative abundances of nitrogen fixation bacteria ofBradyrhizobium and Mesorhizobium obviously increased with continuous cropping years, while theabundances of Arthrobacter, Bacillus, Burkholderiaceae and Microbacterium with potential functionsof solubilizing phosphorus and potassium remarkably decreased after long-term continuouscropping. Furthermore, bacterial cooccurrence patterns were significantly influenced by continuouscropping years, with long-term monocropped alfalfa simplifying the complexity of the cooccurrencenetworks. These findings enhanced our understandings and provided references for forecasting howsoil bacterial communities responds to monocropped alfalfa.
文摘Liver cancer is the second leading cause of cancer death worldwide.Early tumor detection may help identify suitable treatment and increase the survival rate.Medical imaging is a non-invasive tool that can help uncover abnormalities in human organs.Magnetic Resonance Imaging(MRI),in particular,uses magnetic fields and radio waves to differentiate internal human organs tissue.However,the interpretation of medical images requires the subjective expertise of a radiologist and oncologist.Thus,building an automated diagnosis computer-based system can help specialists reduce incorrect diagnoses.This paper proposes a hybrid automated system to compare the performance of 3D features and 2D features in classifying magnetic resonance liver tumor images.This paper proposed two models;the first one employed the 3D features while the second exploited the 2D features.The first system uses 3D texture attributes,3D shape features,and 3D graphical deep descriptors beside an ensemble classifier to differentiate between four 3D tumor categories.On top of that,the proposed method is applied to 2D slices for comparison purposes.The proposed approach attained 100%accuracy in discriminating between all types of tumors,100%Area Under the Curve(AUC),100%sensitivity,and 100%specificity and precision as well in 3D liver tumors.On the other hand,the performance is lower in 2D classification.The maximum accuracy reached 96.4%for two classes and 92.1%for four classes.The top-class performance of the proposed system can be attributed to the exploitation of various types of feature selection methods besides utilizing the ReliefF features selection technique to choose the most relevant features associated with different classes.The novelty of this work appeared in building a highly accurate system under specific circumstances without any processing for the images and human input,besides comparing the performance between 2D and 3D classification.In the future,the presented work can be extended to be used in the huge dataset.Then,it can be a reliable,efficient Computer Aided Diagnosis(CAD)system employed in hospitals in rural areas.
基金Supported by the General Project-Social Development Field of Shaanxi Province Science and Technology Department,No. 2021SF-313Innovation Capability Support Plan of Shaanxi Science and Technology Department-Science and Technology Innovation Team,No. 2020TD-048
文摘BACKGROUND The most important consideration in determining treatment strategies for undifferentiated early gastric cancer(UEGC)is the risk of lymph node metastasis(LNM).Therefore,identifying a potential biomarker that predicts LNM is quite useful in determining treatment.AIM To develop a machine learning(ML)-based integral procedure to construct the LNM gray-level co-occurrence matrix(GLCM)prediction model.METHODS We retrospectively selected 526 cases of UEGC confirmed through pathological examination after radical gastrectomy without endoscopic treatment in four tertiary hospitals between January 2015 to December 2021.We extracted GLCM-based features from grayscale images and applied ML to the classification of candidate predictive variables.The robustness and clinical utility of each model were evaluated based on the following factors:Receiver operating characteristic curve(ROC),decision curve analysis,and clinical impact curve.RESULTS GLCM-based feature extraction significantly correlated with LNM.The top 7 GLCM-based factors included inertia value 0°(IV_0),inertia value 45°(IV_45),inverse gap 0°(IG_0),inverse gap 45°(IG_45),inverse gap full angle(IG_all),Haralick 30°(Haralick_30),Haralick full angle(Haralick_all),and Entropy.The areas under the ROC curve(AUCs)of the random forest classifier(RFC)model,support vector machine,eXtreme gradient boosting,artificial neural network,and decision tree ranged from 0.805[95%confidence interval(CI):0.258-1.352]to 0.925(95%CI:0.378-1.472)in the training set and from 0.794(95%CI:0.237-1.351)to 0.912(95%CI:0.355-1.469)in the testing set,respectively.The RFC(training set:AUC:0.925,95%CI:0.378-1.472;testing set:AUC:0.912,95%CI:0.355-1.469)model that incorporates Entropy,Haralick_all,Haralick_30,IG_all,IG_45,IG_0,and IV_45 had the highest predictive accuracy.CONCLUSION The evaluation results indicate that the method of selecting radiological and textural features becomes more effective in the LNM discrimination against UEGC patients.Additionally,the MLbased prediction model developed using the RFC can be used to derive treatment options and identify LNM,which can hence improve clinical outcomes.
基金Open Fund of the Key Lab of the Ministry of Education for Image Information Processing and Intelligent Control,China(No.200702)
文摘Co-occurrence matrices have been successfully applied in texture classification and segmentation.However,they have poor computation performance in real-time application.In this paper,the efficient co-occurrence matrix solution for defect detection is focused on,and a method of Fuzzy Label Co-occurrence Matrix (FLCM) set is proposed.In this method,all gray levels are supposed to subject to some fuzzy sets called fuzzy tonal sets and three defective features are defined.Features of FLCM set with various parameters are combined for the final judgment.Unlike many methods,image acquired for learning hasn't to be entirely free of defects.It is shown that the method produces high accuracy and can be a competent candidate for plain colour fabric defect detection.
文摘The use of massive image databases has increased drastically over the few years due to evolution of multimedia technology.Image retrieval has become one of the vital tools in image processing applications.Content-Based Image Retrieval(CBIR)has been widely used in varied applications.But,the results produced by the usage of a single image feature are not satisfactory.So,multiple image features are used very often for attaining better results.But,fast and effective searching for relevant images from a database becomes a challenging task.In the previous existing system,the CBIR has used the combined feature extraction technique using color auto-correlogram,Rotation-Invariant Uniform Local Binary Patterns(RULBP)and local energy.However,the existing system does not provide significant results in terms of recall and precision.Also,the computational complexity is higher for the existing CBIR systems.In order to handle the above mentioned issues,the Gray Level Co-occurrence Matrix(GLCM)with Deep Learning based Enhanced Convolution Neural Network(DLECNN)is proposed in this work.The proposed system framework includes noise reduction using histogram equalization,feature extraction using GLCM,similarity matching computation using Hierarchal and Fuzzy c-Means(HFCM)algorithm and the image retrieval using DLECNN algorithm.The histogram equalization has been used for computing the image enhancement.This enhanced image has a uniform histogram.Then,the GLCM method has been used to extract the features such as shape,texture,colour,annotations and keywords.The HFCM similarity measure is used for computing the query image vector's similarity index with every database images.For enhancing the performance of this image retrieval approach,the DLECNN algorithm is proposed to retrieve more accurate features of the image.The proposed GLCM+DLECNN algorithm provides better results associated with high accuracy,precision,recall,f-measure and lesser complexity.From the experimental results,it is clearly observed that the proposed system provides efficient image retrieval for the given query image.
基金This work was supported by the National natural science foundation of China(No:62071057)Beijing nature fund(No:3182028).The support is gratefully acknowledged.
文摘With the rapid development of communication and computer,the individual identification technology of communication equipment has been brought to many application scenarios.The identification of the same type of electronic equipment is of considerable significance,whether it is the identification of friend or foe in military applications,identity determination,radio spectrum management in civil applications,equipment fault diagnosis,and so on.Because of the limited-expression ability of the traditional electromagnetic signal representation methods in the face of complex signals,a new method of individual identification of the same equipment of communication equipment based on deep learning is proposed.The contents of this paper include the following aspects:(1)Considering the shortcomings of deep learning in processing small sample data,this paper provides a universal and robust feature template for signal data.This paper constructs a relatively complete signal template library from multiple perspectives,such as time domain and transform domain features,combined with high-order statistical analysis.Based on the inspiration of the image texture feature,characteristics of amplitude histogram of signal and the signal amplitude co-occurrence matrix(SACM)are proposed in this paper.These signal features can be used as a signal fingerprint template for individual identification.(2)Considering the limitation of the recognition rate of a single classifier,using the integrated classifier has achieved better generalization ability.The final average accuracy of 5 NRF24LE1 modules is up to 98%and solved the problem of individual identification of the same equipment of communication equipment under the condition of the small sample,low signal-to-noise ratio.
文摘The development of high-resolution remote sensing imaging technology provides a new way to the large-scale estimation of forest canopy density. The traditional inversion methods for canopy density only use spectral or topographical features of remote sensing images.However,due to the existence of the different thing with same spectrum and the same thing with different spectrum phenomena,it is difficult to improve the estimation accuracy of canopy density.Based on spectrum and other traditional features,this paper combines texture features of remote sensing images to estimate canopy density.Firstly,the gray level co-occurrence matrix (GLCM) texture features are computed using objectbased method.Then,the principal component analysis (PCA) method is applied in correlation analysis and dimension reduction of texture features.Finally, spectrum and topographical features together with texture features are introduced into stepwise regression model to estimate canopy density.The experimental results showed that compared with the traditional method only based on spectrum or topographical features,the method combined with texture features greatly improved the estimation accuracy.The coefficient of determination(adjusted R^2 ) increased from 0.737 to 0.805.The estimation accuracy increased from 81.03%to 84.32%.
