Biological network alignment is an important research topic in the field of bioinformatics. Nowadays almost every existing alignment method is designed to solve the deterministic biological network alignment problem.H...Biological network alignment is an important research topic in the field of bioinformatics. Nowadays almost every existing alignment method is designed to solve the deterministic biological network alignment problem.However, it is worth noting that interactions in biological networks, like many other processes in the biological realm,are probabilistic events. Therefore, more accurate and better results can be obtained if biological networks are characterized by probabilistic graphs. This probabilistic information, however, increases difficulties in analyzing networks and only few methods can handle the probabilistic information. Therefore, in this paper, an improved Probabilistic Biological Network Alignment（PBNA） is proposed. Based on Iso Rank, PBNA is able to use the probabilistic information. Furthermore, PBNA takes advantages of Contributor and Probability Generating Function（PGF） to improve the accuracy of node similarity value and reduce the computational complexity of random variables in similarity matrix. Experimental results on dataset of the Protein-Protein Interaction（PPI） networks provided by Todor demonstrate that PBNA can produce some alignment results that ignored by the deterministic methods, and produce more biologically meaningful alignment results than Iso Rank does in most of the cases based on the Gene Ontology Consistency（GOC） measure. Compared with Prob method, which is designed exactly to solve the probabilistic alignment problem, PBNA can obtain more biologically meaningful mappings in less time.展开更多
In the construction and maintenance of particle accelerators,all the accelerator elements should be installed in the same coordinate system,only in this way could the devices in the actual world be consistent with the...In the construction and maintenance of particle accelerators,all the accelerator elements should be installed in the same coordinate system,only in this way could the devices in the actual world be consistent with the design drawings.However,with the occurrence of the movements of the reinforced concrete cover plates at short notice or building deformations in the long term,the control points upon the engineering structure will be displaced,and the fitness between the subnetwork and the global control network may be irresponsible.Therefore,it is necessary to evaluate the deformations of the 3D alignment control network.Different from the extant investigations,in this paper,to characterize the deformations of the control network,all of the congruent models between the points measured in different epochs have been identified,and the congruence model with the most control points is considered as the primary or fundamental model,the remaining models are recognized as the additional ones.Furthermore,the discrepancies between the primary S-transformation parameters and the additional S-transformation parameters can reflect the relative movements of the additional congruence models.Both the iterative GCT method and the iterative combinatorial theory are proposed to detect multiple congruence models in the control network.Considering the actual work of the alignment,it is essential to identify the competitive models in the monitoring network,which can provide us a hint that,even the fitness between the subnetwork and the global control network is good,there are still deformations which may be ignored.The numerical experiments show that the suggested approaches can describe the deformation of the 3D alignment control network roundly.展开更多
Nowadays,carbon frameworks derived from natural biomaterials have attracted extensive attention for electromagnetic interference(EMI)shielding due to their renewability and affordability.However,it is critical and cha...Nowadays,carbon frameworks derived from natural biomaterials have attracted extensive attention for electromagnetic interference(EMI)shielding due to their renewability and affordability.However,it is critical and challenging to achieve effective regulation of shielding effectiveness(SE)as well as weaken the strong EM reflection of highly conductive biomass-based carbon materials.Herein,commercial cotton pads with oriented structure were selected as carbonaceous precursor to fabricate aligned carbon networks by pyrolysis,and the EMI SE of the samples with increased temperature of 800-1000℃ can be accurately controlled in the effective range of~21.7-29.1,~27.7-37.1 and~32.7-43.3 d B with high reflection coefficient of>0.8 by changing the cross-angle between the electric-field direction of incident EM waves and the fiber-orientation direction due to the occurrence of opposite internal electric field.Moreover,the further construction of Salisbury absorber-liked double-layer structure could result in an ultralow reflection coefficient of only~0.06 but enhanced SE variation range up to~38.7-49.3 d B during the adjustment of cross-angle,possibly due to the destructive interference of EM waves in the double-layer carbon networks.This work would provide a simple and effective way for constructing high-performance biomass carbon materials with adjustable EMI shielding and ultra-low reflectivity.展开更多
High-efficiency electromagnetic interference(EMI)shielding materials are of great importance for electronic equipment reliability,information security and human health.In this work,bidirectional aligned Ti_(3)C_(2)T_(...High-efficiency electromagnetic interference(EMI)shielding materials are of great importance for electronic equipment reliability,information security and human health.In this work,bidirectional aligned Ti_(3)C_(2)T_(x)@Fe_(3)O_(4)/CNF aerogels(BTFCA)were firstly assembled by bidirectional freezing and freeze-drying technique,and the BTFCA/epoxy nanocomposites with long-range aligned lamellar structures were then prepared by vacuum-assisted impregnation of epoxy resins.Benefitting from the successful construction of bidirectional aligned three-dimensional conductive networks and electromagnetic synergistic effect,when the mass fraction of Ti_(3)C_(2)T_(x)and Fe_(3)O_(4)are 2.96 and 1.48 wt%,BTFCA/epoxy nanocomposites show outstanding EMI shield-ing effectiveness of 79 dB,about 10 times of that of blended Ti_(3)C_(2)T_(x)@Fe_(3)O_(4)/epoxy(8 dB)nanocomposites with the same loadings of Ti_(3)C_(2)T_(x)and Fe_(3)O_(4).Meantime,the corresponding BTFCA/epoxy nanocomposites also present excellent thermal stability(T_(heat-resistance index)of 198.7℃)and mechanical properties(storage modulus of 9902.1 MPa,Young’s modulus of 4.51 GPa and hardness of 0.34 GPa).Our fabricated BTFCA/epoxy nanocomposites would greatly expand the applications of MXene and epoxy resins in the fields of information security,aerospace and weapon manufacturing,etc.展开更多
One paper in a preceding issue of this journal has introduced the Bayesian Ying-Yang(BYY)harmony learning from a perspective of problem solving,parameter learning,and model selection.In a complementary role,the paper ...One paper in a preceding issue of this journal has introduced the Bayesian Ying-Yang(BYY)harmony learning from a perspective of problem solving,parameter learning,and model selection.In a complementary role,the paper provides further insights from another perspective that a co-dimensional matrix pair(shortly co-dim matrix pair)forms a building unit and a hierarchy of such building units sets up the BYY system.The BYY harmony learning is re-examined via exploring the nature of a co-dim matrix pair,which leads to improved learning performance with refined model selection criteria and a modified mechanism that coordinates automatic model selection and sparse learning.Besides updating typical algorithms of factor analysis(FA),binary FA(BFA),binary matrix factorization(BMF),and nonnegative matrix factorization(NMF)to share such a mechanism,we are also led to(a)a new parametrization that embeds a de-noise nature to Gaussian mixture and local FA(LFA);(b)an alternative formulation of graph Laplacian based linear manifold learning;(c)a codecomposition of data and covariance for learning regularization and data integration;and(d)a co-dim matrix pair based generalization of temporal FA and state space model.Moreover,with help of a co-dim matrix pair in Hadamard product,we are led to a semi-supervised formation for regression analysis and a semi-blind learning formation for temporal FA and state space model.Furthermore,we address that these advances provide with new tools for network biology studies,including learning transcriptional regulatory,Protein-Protein Interaction network alignment,and network integration.展开更多
Phase change materials(PCMs)are widely considered as promising energy storage materials for solar/electro-thermal energy storage.Nevertheless,the inherent low thermal/electrical conductivities of most PCMs limit their...Phase change materials(PCMs)are widely considered as promising energy storage materials for solar/electro-thermal energy storage.Nevertheless,the inherent low thermal/electrical conductivities of most PCMs limit their energy conversion efficiencies,hindering their practical applications.Herein,we fabricate a highly thermally/electrically conductive solid-solid phase change composite(PCC)enabled by forming aligned graphite networks through pressing the mixture of the trimethylolethane and porous expanded graphite(EG).Experiments indicate that both the thermal and electrical conductivities of the PCC increase with increasing mass proportion of the EG because the aligned graphite networks establish highly conductive pathways.Meanwhile,the PCC4 sample with the EG proportion of 20wt%can achieve a high thermal conductivity of 12.82±0.38W·m^(-1)·K^(-1)and a high electrical conductivity of 4.11±0.02S·cm^(-1)in the lengthwise direction.Furthermore,a solar-thermal energy storage device incorporating the PCC4,a solar selective absorber,and a highly transparent glass is developed,which reaches a high solar-thermal efficiency of 77.30±2.71%under 3.0 suns.Moreover,the PCC4 can also reach a high electro-thermal efficiency of 91.62±3.52%at a low voltage of 3.6V,demonstrating its superior electro-thermal storage performance.Finally,stability experiments indicate that PCCs exhibit stabilized performance in prolonged TES operations.Overall,this work offers highly conductive and cost-effective PCCs,which are suitable for large-scale and efficient solar/electro-thermal energy storage.展开更多
The initiation of B-cell ligand recognition is a critical step for the generation of an immune response against foreign bodies. We sought to identify the biochemical pathways involved in the B-cell ligand recognition ...The initiation of B-cell ligand recognition is a critical step for the generation of an immune response against foreign bodies. We sought to identify the biochemical pathways involved in the B-cell ligand recognition cascade and sets of ligands that trigger similar immunological responses. We utilized several comparative approaches to analyze the gene coexpression networks generated from a set of microarray experiments spanning 33 different ligands. First, we compared the degree distributions of the generated networks. Second, we utilized a pairwise network alignment algorithm, BiNA, to align the networks based on the hubs in the networks. Third, we aligned the networks based on a set of KEGG pathways. We summarized our results by constructing a consensus hierarchy of pathways that are involved in B cell ligand recognition. The resulting pathways were further validated through literature for their common physiological responses. Col- lectively, the results based on our comparative analyses of degree distributions, alignment of hubs, and alignment based on KEGG path- ways provide a basis for molecular characterization of the immune response states of B-cells and demonstrate the power of comparative approaches （e.g., gene coexpression network alignment algorithms） in elucidating biochemical pathways involved in complex signaling events in ceils.展开更多
基金supported by the Natural Science Foundation of Jiangsu Province under Grant No. BK2012742
文摘Biological network alignment is an important research topic in the field of bioinformatics. Nowadays almost every existing alignment method is designed to solve the deterministic biological network alignment problem.However, it is worth noting that interactions in biological networks, like many other processes in the biological realm,are probabilistic events. Therefore, more accurate and better results can be obtained if biological networks are characterized by probabilistic graphs. This probabilistic information, however, increases difficulties in analyzing networks and only few methods can handle the probabilistic information. Therefore, in this paper, an improved Probabilistic Biological Network Alignment（PBNA） is proposed. Based on Iso Rank, PBNA is able to use the probabilistic information. Furthermore, PBNA takes advantages of Contributor and Probability Generating Function（PGF） to improve the accuracy of node similarity value and reduce the computational complexity of random variables in similarity matrix. Experimental results on dataset of the Protein-Protein Interaction（PPI） networks provided by Todor demonstrate that PBNA can produce some alignment results that ignored by the deterministic methods, and produce more biologically meaningful alignment results than Iso Rank does in most of the cases based on the Gene Ontology Consistency（GOC） measure. Compared with Prob method, which is designed exactly to solve the probabilistic alignment problem, PBNA can obtain more biologically meaningful mappings in less time.
文摘In the construction and maintenance of particle accelerators,all the accelerator elements should be installed in the same coordinate system,only in this way could the devices in the actual world be consistent with the design drawings.However,with the occurrence of the movements of the reinforced concrete cover plates at short notice or building deformations in the long term,the control points upon the engineering structure will be displaced,and the fitness between the subnetwork and the global control network may be irresponsible.Therefore,it is necessary to evaluate the deformations of the 3D alignment control network.Different from the extant investigations,in this paper,to characterize the deformations of the control network,all of the congruent models between the points measured in different epochs have been identified,and the congruence model with the most control points is considered as the primary or fundamental model,the remaining models are recognized as the additional ones.Furthermore,the discrepancies between the primary S-transformation parameters and the additional S-transformation parameters can reflect the relative movements of the additional congruence models.Both the iterative GCT method and the iterative combinatorial theory are proposed to detect multiple congruence models in the control network.Considering the actual work of the alignment,it is essential to identify the competitive models in the monitoring network,which can provide us a hint that,even the fitness between the subnetwork and the global control network is good,there are still deformations which may be ignored.The numerical experiments show that the suggested approaches can describe the deformation of the 3D alignment control network roundly.
基金financial supports from Natural Science Foundation of Ningbo(202003N4026)S&T Innovation 2025 Major Special Programme of Ningbo(2018B10054)National Natural Science Foundation of China(62001065 and 51603218)。
文摘Nowadays,carbon frameworks derived from natural biomaterials have attracted extensive attention for electromagnetic interference(EMI)shielding due to their renewability and affordability.However,it is critical and challenging to achieve effective regulation of shielding effectiveness(SE)as well as weaken the strong EM reflection of highly conductive biomass-based carbon materials.Herein,commercial cotton pads with oriented structure were selected as carbonaceous precursor to fabricate aligned carbon networks by pyrolysis,and the EMI SE of the samples with increased temperature of 800-1000℃ can be accurately controlled in the effective range of~21.7-29.1,~27.7-37.1 and~32.7-43.3 d B with high reflection coefficient of>0.8 by changing the cross-angle between the electric-field direction of incident EM waves and the fiber-orientation direction due to the occurrence of opposite internal electric field.Moreover,the further construction of Salisbury absorber-liked double-layer structure could result in an ultralow reflection coefficient of only~0.06 but enhanced SE variation range up to~38.7-49.3 d B during the adjustment of cross-angle,possibly due to the destructive interference of EM waves in the double-layer carbon networks.This work would provide a simple and effective way for constructing high-performance biomass carbon materials with adjustable EMI shielding and ultra-low reflectivity.
基金The authors are grateful for the supports from the National Natural Science Foundation of China(U21A2093 and 52203100)Y.L.Zhang would like to thank the Innovation Foundation for Doctor Dissertation of Northwestern Polytechnical University(CX2021107)。
文摘High-efficiency electromagnetic interference(EMI)shielding materials are of great importance for electronic equipment reliability,information security and human health.In this work,bidirectional aligned Ti_(3)C_(2)T_(x)@Fe_(3)O_(4)/CNF aerogels(BTFCA)were firstly assembled by bidirectional freezing and freeze-drying technique,and the BTFCA/epoxy nanocomposites with long-range aligned lamellar structures were then prepared by vacuum-assisted impregnation of epoxy resins.Benefitting from the successful construction of bidirectional aligned three-dimensional conductive networks and electromagnetic synergistic effect,when the mass fraction of Ti_(3)C_(2)T_(x)and Fe_(3)O_(4)are 2.96 and 1.48 wt%,BTFCA/epoxy nanocomposites show outstanding EMI shield-ing effectiveness of 79 dB,about 10 times of that of blended Ti_(3)C_(2)T_(x)@Fe_(3)O_(4)/epoxy(8 dB)nanocomposites with the same loadings of Ti_(3)C_(2)T_(x)and Fe_(3)O_(4).Meantime,the corresponding BTFCA/epoxy nanocomposites also present excellent thermal stability(T_(heat-resistance index)of 198.7℃)and mechanical properties(storage modulus of 9902.1 MPa,Young’s modulus of 4.51 GPa and hardness of 0.34 GPa).Our fabricated BTFCA/epoxy nanocomposites would greatly expand the applications of MXene and epoxy resins in the fields of information security,aerospace and weapon manufacturing,etc.
基金supported by the General Research Fund from Research Grant Council of Hong Kong(Project No.CUHK4180/10E)the National Basic Research Program of China(973 Program)(No.2009CB825404).
文摘One paper in a preceding issue of this journal has introduced the Bayesian Ying-Yang(BYY)harmony learning from a perspective of problem solving,parameter learning,and model selection.In a complementary role,the paper provides further insights from another perspective that a co-dimensional matrix pair(shortly co-dim matrix pair)forms a building unit and a hierarchy of such building units sets up the BYY system.The BYY harmony learning is re-examined via exploring the nature of a co-dim matrix pair,which leads to improved learning performance with refined model selection criteria and a modified mechanism that coordinates automatic model selection and sparse learning.Besides updating typical algorithms of factor analysis(FA),binary FA(BFA),binary matrix factorization(BMF),and nonnegative matrix factorization(NMF)to share such a mechanism,we are also led to(a)a new parametrization that embeds a de-noise nature to Gaussian mixture and local FA(LFA);(b)an alternative formulation of graph Laplacian based linear manifold learning;(c)a codecomposition of data and covariance for learning regularization and data integration;and(d)a co-dim matrix pair based generalization of temporal FA and state space model.Moreover,with help of a co-dim matrix pair in Hadamard product,we are led to a semi-supervised formation for regression analysis and a semi-blind learning formation for temporal FA and state space model.Furthermore,we address that these advances provide with new tools for network biology studies,including learning transcriptional regulatory,Protein-Protein Interaction network alignment,and network integration.
基金supported by the Natural Science Foundation of Hunan Province(No.2024JJ4059)Changsha Outstanding Innovative Youth Training Program(No.kq2306010)+1 种基金National Natural Science Foundation of China(No.52176093)the Central South University Innovation-Driven Research Programme(No.2023CXQD055).
文摘Phase change materials(PCMs)are widely considered as promising energy storage materials for solar/electro-thermal energy storage.Nevertheless,the inherent low thermal/electrical conductivities of most PCMs limit their energy conversion efficiencies,hindering their practical applications.Herein,we fabricate a highly thermally/electrically conductive solid-solid phase change composite(PCC)enabled by forming aligned graphite networks through pressing the mixture of the trimethylolethane and porous expanded graphite(EG).Experiments indicate that both the thermal and electrical conductivities of the PCC increase with increasing mass proportion of the EG because the aligned graphite networks establish highly conductive pathways.Meanwhile,the PCC4 sample with the EG proportion of 20wt%can achieve a high thermal conductivity of 12.82±0.38W·m^(-1)·K^(-1)and a high electrical conductivity of 4.11±0.02S·cm^(-1)in the lengthwise direction.Furthermore,a solar-thermal energy storage device incorporating the PCC4,a solar selective absorber,and a highly transparent glass is developed,which reaches a high solar-thermal efficiency of 77.30±2.71%under 3.0 suns.Moreover,the PCC4 can also reach a high electro-thermal efficiency of 91.62±3.52%at a low voltage of 3.6V,demonstrating its superior electro-thermal storage performance.Finally,stability experiments indicate that PCCs exhibit stabilized performance in prolonged TES operations.Overall,this work offers highly conductive and cost-effective PCCs,which are suitable for large-scale and efficient solar/electro-thermal energy storage.
基金funded by the National Science Foundation (NSF) Grant (DGE0504304) to Iowa State University and NSF Grants 0939370,0835541 and 0641037 awarded to SS
文摘The initiation of B-cell ligand recognition is a critical step for the generation of an immune response against foreign bodies. We sought to identify the biochemical pathways involved in the B-cell ligand recognition cascade and sets of ligands that trigger similar immunological responses. We utilized several comparative approaches to analyze the gene coexpression networks generated from a set of microarray experiments spanning 33 different ligands. First, we compared the degree distributions of the generated networks. Second, we utilized a pairwise network alignment algorithm, BiNA, to align the networks based on the hubs in the networks. Third, we aligned the networks based on a set of KEGG pathways. We summarized our results by constructing a consensus hierarchy of pathways that are involved in B cell ligand recognition. The resulting pathways were further validated through literature for their common physiological responses. Col- lectively, the results based on our comparative analyses of degree distributions, alignment of hubs, and alignment based on KEGG path- ways provide a basis for molecular characterization of the immune response states of B-cells and demonstrate the power of comparative approaches （e.g., gene coexpression network alignment algorithms） in elucidating biochemical pathways involved in complex signaling events in ceils.
