Discovery of materials using“bottom-up”or“top-down”approach is of great interest in materials science.Layered materials consisting of two-dimensional(2D)building blocks provide a good platform to explore new mater...Discovery of materials using“bottom-up”or“top-down”approach is of great interest in materials science.Layered materials consisting of two-dimensional(2D)building blocks provide a good platform to explore new materials in this respect.In van der Waals(vdW)layered materials,these building blocks are charge neutral and can be isolated from their bulk phase(top-down),but usually grow on substrate.In ionic layered materials,they are charged and usually cannot exist independently but can serve as motifs to construct new materials(bottom-up).In this paper,we introduce our recently constructed databases for 2D material-substrate interface(2DMSI),and 2D charged building blocks.For 2DMSI database,we systematically build a workflow to predict appropriate substrates and their geometries at substrates,and construct the 2DMSI database.For the 2D charged building block database,1208 entries from bulk material database are identified.Information of crystal structure,valence state,source,dimension and so on is provided for each entry with a json format.We also show its application in designing and searching for new functional layered materials.The 2DMSI database,building block database,and designed layered materials are available in Science Data Bank at https://doi.org/10.57760/sciencedb.j00113.00188.展开更多
Advancing the integration of artificial intelligence and polymer science requires high-quality,open-source,and large-scale datasets.However,existing polymer databases often suffer from data sparsity,lack of polymer-pr...Advancing the integration of artificial intelligence and polymer science requires high-quality,open-source,and large-scale datasets.However,existing polymer databases often suffer from data sparsity,lack of polymer-property labels,and limited accessibility,hindering system-atic modeling across property prediction tasks.Here,we present OpenPoly,a curated experimental polymer database derived from extensive lit-erature mining and manual validation,comprising 3985 unique polymer-property data points spanning 26 key properties.We further develop a multi-task benchmarking framework that evaluates property prediction using four encoding methods and eight representative models.Our re-sults highlight that the optimized degree-of-polymerization encoding coupled with Morgan fingerprints achieves an optimal trade-off between computational cost and accuracy.In data-scarce condition,XGBoost outperforms deep learning models on key properties such as dielectric con-stant,glass transition temperature,melting point,and mechanical strength,achieving R2 scores of 0.65-0.87.To further showcase the practical utility of the database,we propose potential polymers for two energy-relevant applications:high temperature polymer dielectrics and fuel cell membranes.By offering a consistent and accessible benchmark and database,OpenPoly paves the way for more accurate polymer-property modeling and fosters data-driven advances in polymer genome engineering.展开更多
In order to implement semantic mapping of database metasearch engines, a system is proposed, which uses ontology as the organization form of information and records the new words not appearing in the ontology. When th...In order to implement semantic mapping of database metasearch engines, a system is proposed, which uses ontology as the organization form of information and records the new words not appearing in the ontology. When the new word＇ s frequency of use exceeds the threshold, it is added into the ontology. Ontology expansion is implemented in this way. The search process supports ＂and＂ and ＂or＂ Boolean operations accordingly. In order to improve the mapping speed of the system, a memory module is added which can memorize the recent query information of users and automatically learn the user＇ s query interest during the mapping which can dynamically decide the search order of instances tables. Experiments prove that these measures can obviously reduce the average mapping time.展开更多
Soil metaproteomics has excellent potential as a tool to elucidate the structural and functional changes in soil microbial communities in response to environmental alterations. However, soil metaproteomics is hindered...Soil metaproteomics has excellent potential as a tool to elucidate the structural and functional changes in soil microbial communities in response to environmental alterations. However, soil metaproteomics is hindered by several challenges and gaps. Soil microbial communities possess extremely complex microbial composition, including many uncultured microorganisms without whole genome sequencing. Thus, how to select a suitable protein sequence database remains challenging in soil metaproteomics. In this study, the Public database and Meta-database were constructed using protein sequences from public databases and metagenomics, respectively. We comprehensively analyzed and compared the soil metaproteomic results using these two kinds of protein sequence databases for protein identification based on published soil metaproteomic raw data. The results demonstrated that many more proteins, higher sequence coverage, and even more microbial species and functional annotations could be identified using the Meta-database compared with those identified using the Public database. These findings indicated that the Meta-database was more specific as a protein sequence database. However, the follow-up in-depth metaproteomic analyses exhibited similar main results regardless of the database used. The microbial community composition at the genus level was similar between the two databases, especially the species annotations with high peptide-spectrum match and high abundance. The functional analyses in response to stress, such as the gene ontology enrichment of biological progress and molecular function and the key functional microorganisms, were also similar regardless of the database. Our analysis revealed that the Public database could also meet the demand to explore the functional responses of microbial proteins to some extent. This study provides valuable insights into the choice of protein sequence databases and their impacts on subsequent bioinformatic analysis in soil metaproteomic research and will facilitate the optimization of experimental design for different purposes.展开更多
Lentil(Lens culinaris Medik.), a diploid(2n = 14) with a genome size greater than 4000 Mbp, is an important cool season food legume grown worldwide. The availability of genomic resources is limited in this crop specie...Lentil(Lens culinaris Medik.), a diploid(2n = 14) with a genome size greater than 4000 Mbp, is an important cool season food legume grown worldwide. The availability of genomic resources is limited in this crop species. The objective of this study was to develop polymorphic markers in lentil using publicly available curated expressed sequence tag information(ESTs). In this study, 9513 ESTs were downloaded from the National Center for Biotechnology Information(NCBI) database to develop unigene-based simple sequence repeat(SSR) markers. The ESTs were assembled into 4053 unigenes and then analyzed to identify 374 SSRs using the MISA microsatellite identification tool. Among the 374 SSRs, 26 compound SSRs were observed.Primer pairs for these SSRs were designed using Primer3 version 1.14. To classify the functional annotation of ESTs and EST–SSRs, BLASTx searches(using E-value 1 × 10-5) against the public UniP rot(http://www.uniprot.org/) and NCBI(http://www.ncbi.nlh.nih.gov/) databases were performed. Further functional annotation was performed using PLAZA(version3.0) comparative genomics and GO annotation was summarized using the Plant GO slim category. Among the synthesized 312 primers, 219 successfully amplified Lens DNA. A diverse panel of 24 Lens genotypes was used to identify polymorphic markers. A polymorphic set of 57 markers successfully discriminated the test genotypes. This set of polymorphic markers with functional annotation data could be used as molecular tools in lentil breeding.展开更多
Modular technology can effectively support the rapid design of products, and it is one of the key technologies to realize mass customization design. With the application of product lifecycle management(PLM) system in ...Modular technology can effectively support the rapid design of products, and it is one of the key technologies to realize mass customization design. With the application of product lifecycle management(PLM) system in enterprises, the product lifecycle data have been effectively managed. However, these data have not been fully utilized in module division, especially for complex machinery products. To solve this problem, a product module mining method for the PLM database is proposed to improve the effect of module division. Firstly, product data are extracted from the PLM database by data extraction algorithm. Then, data normalization and structure logical inspection are used to preprocess the extracted defective data. The preprocessed product data are analyzed and expressed in a matrix for module mining. Finally, the fuzzy c-means clustering(FCM) algorithm is used to generate product modules, which are stored in product module library after module marking and post-processing. The feasibility and effectiveness of the proposed method are verified by a case study of high pressure valve.展开更多
1 Introduction Fresh or saline,lakes constantly exchange with other water bodies on the Earth.Together,they form a crucial part of the water cycle–one of the most important ecosystem functions supporting humans and o...1 Introduction Fresh or saline,lakes constantly exchange with other water bodies on the Earth.Together,they form a crucial part of the water cycle–one of the most important ecosystem functions supporting humans and other biological communities.Lakes have provided invaluable and irreplaceable ecosystem services(benefits)for the展开更多
The paper firstly analyses disadvantages in the traditional Web database systems. And then it puts forward a simplified framework called database-oriented Web framework (DOWF). In this framework, the pages and the dat...The paper firstly analyses disadvantages in the traditional Web database systems. And then it puts forward a simplified framework called database-oriented Web framework (DOWF). In this framework, the pages and the data are all managed by database system. In order to get keywords or search a special page, which the users accessed before, users access the static pages by common script procedure (CSP), and access the dynamic pages by functional script procedure (FSP) and CSP. The article expounds the method how to implement DOWF in details. The paper also analyses the mechanism of a DOWF site by implementing a prototype system. At last, the article gives the features of DOWS in search, in security, in reuse of pages and in offline waiting, etc. Key words database-oriented - Web framework - common script procedure (CSP) - functional script procedure (FSP) CLC number TP 391 Foundation item: Supported by Natural Science Foundation of Jiangsu Province (BK2003030).Biography: ZHU Qiao-ming (1963-), male, professor, research direction: Web information processing chinses information processing.展开更多
Insect olfactory receptors(iORs)with atypical 7-transmembrane domains,unlike Chordata olfactory receptors,are not in the GPCR protein family.iORs selectively bind to volatile ligands in the environment and affect esse...Insect olfactory receptors(iORs)with atypical 7-transmembrane domains,unlike Chordata olfactory receptors,are not in the GPCR protein family.iORs selectively bind to volatile ligands in the environment and affect essential insect behaviors.In this study,we constructed a new platform(iORbase,https://www.iorbase.com)for the structural and functional analysis of iORs based on a combined algorithm for gene annotation and protein structure prediction.Moreover,it provides the option to calculate the binding affinities and binding residues between iORs and pheromone molecules by virtual screening of docking.Furthermore,iORbase supports the automatic structural and functional prediction of user-submitted iORs or pheromones.iORbase contains the well-analyzed results of approximately 6000 iORs and their 3D protein structures identified from 59 insect species and 2077 insect pheromones from the literature,as well as approximately 12 million pairs of simulated interactions between functional iORs and pheromones.We also built 4 online modules,iORPDB,iInteraction,iModelTM,and iOdorTool to easily retrieve and visualize the 3D structures and interactions.iORbase can help greatly improve the experimental efficiency and success rate,identify new insecticide targets,or develop electronic nose technology.This study will shed light on the olfactory recognition mechanism and evolutionary characteristics from the perspectives of omics and macroevolution.展开更多
The authors regret that an error occurred during the preparation of their article:One of the official databases,which was used for functional trait collections,contained an incorrect term–'chametophytes'–for...The authors regret that an error occurred during the preparation of their article:One of the official databases,which was used for functional trait collections,contained an incorrect term–'chametophytes'–for the life form category'chamaephytes'.Unfortunately,this incorrect term was used throughout the article following the nomenclature of this official database:in one instance in the main text,in Fig.3 and its caption,in Fig.5,and in two instances in the supplementary material.展开更多
Dear Editor,Although traditional breeding methods,such as phenotypebased and marker-assisted selection,remain valuable,genomic selection(GS)has emerged as a promising new approach.To address limitations of GS,particul...Dear Editor,Although traditional breeding methods,such as phenotypebased and marker-assisted selection,remain valuable,genomic selection(GS)has emerged as a promising new approach.To address limitations of GS,particularly the time and cost involved in developing training populations,we developed Rice3KGS,a web-based tool that provides access to diverse datasets and integrates analytical functions to support crop breeding efforts.展开更多
Spatial memory is crucial for survival within external surroundings and wild environments.The hippocampus,a critical hub for spatial learning and memory formation,has received extensive investigations on how neuromodu...Spatial memory is crucial for survival within external surroundings and wild environments.The hippocampus,a critical hub for spatial learning and memory formation,has received extensive investigations on how neuromodulators shape its functions(Teixeira et al.,2018;Zhang et al.,2024).However,the landscape of neuromodulations in the hippocampal system remains poorly understood because most studies focus on classical monoamine neuromodulators,such as acetylcholine,serotonin,dopamine,and noradrenaline.The neuropeptides,comprising the most abundant neuromodulators in the central nervous system,play a pivotal role in neural information processing in the hippocampal system.Cholecystokinin(CCK),one of the most abundant neuropeptides,has been implicated in regulating various physiological and neurobiological statuses(Chen et al.,2019).CCK-A receptor(CCK-AR)and CCK-B receptors(CCK-BR)are two key receptors mediating the biological functions of CCK,both of which belong to class-A sevenfold transmembrane G protein-coupled receptors(Nishimura et al.,2015).CCK-AR preferentially reacts to sulfated CCK,whereas CCK-BR binds both CCK and gastrin with similar affinities(Ding et al.,2022).The expression patterns of CCK-AR and CCK-BR are distinct,implying that CCK has various functions in target regions.For instance,CCK-AR is widely expressed in the GI and brain subregions and is hence implicated in the control of digestive function and satiety regulation.Conversely,CCK-BR is abundantly and widely distributed in the central nervous system,which majorly regulates anxiety,learning,and memory(Ding et al.,2022).However,the roles of endogenous CCK and CCK receptors in regulating hippocampal function at electrophysiological and behavioral levels have received less attention.展开更多
To extract and display the significant information of combat systems,this paper introduces the methodology of functional cartography into combat networks and proposes an integrated framework named“functional cartogra...To extract and display the significant information of combat systems,this paper introduces the methodology of functional cartography into combat networks and proposes an integrated framework named“functional cartography of heterogeneous combat networks based on the operational chain”(FCBOC).In this framework,a functional module detection algorithm named operational chain-based label propagation algorithm(OCLPA),which considers the cooperation and interactions among combat entities and can thus naturally tackle network heterogeneity,is proposed to identify the functional modules of the network.Then,the nodes and their modules are classified into different roles according to their properties.A case study shows that FCBOC can provide a simplified description of disorderly information of combat networks and enable us to identify their functional and structural network characteristics.The results provide useful information to help commanders make precise and accurate decisions regarding the protection,disintegration or optimization of combat networks.Three algorithms are also compared with OCLPA to show that FCBOC can most effectively find functional modules with practical meaning.展开更多
Continuing advancement in astronomy,space exploration,and scientific detection,has increased demand for infrared multi-band detection systems.Traditional three-band optical systems,designed to simultaneously image at ...Continuing advancement in astronomy,space exploration,and scientific detection,has increased demand for infrared multi-band detection systems.Traditional three-band optical systems,designed to simultaneously image at infrared short-wave,mid-wave,and long-wave bands typically rely on dispersive elements,leading to bulky sizes,complex system architectures,low efficiency,and challenges in rapid assembly.To overcome these obstacles,in combination with the latest third-generation infrared detectors,we propose a design for a compact and lightweight three-band optical system,with infrared capabilities in all three required bands.The core of this approach is an integrated design philosophy that emphasizes the high steepness of mirror surfaces.This design achieves uniform correction and optimization of chromatic aberration and off-axis aberration across the spectral range.We introduce a novel integration of optical and mechanical elements to replace traditional assembly,reducing manufacturing and assembly errors,and degrees of freedom,associated with high-power optical elements.Confirming the effectiveness through a combination of simulations and experimental comparisons,the measured mid-wave full-field transfer function exceeds 0.405 at 17 lp/mm,satisfying the imaging requirements of the system.The optical system is lightweight and compact,with a total mass under 408 g and a compact volume of justΦ112 mm×117 mm.This serves as a valuable reference for the engineering application of high-performance,compact multi-band infrared composite detection systems for astronomy and space exploration.展开更多
A generalized multiple-mode prolate spherical wave functions (PSWFs) multi-carrier with index modulation approach is proposed with the purpose of improving the spectral efficiency of PSWFs multi-carrier systems. The p...A generalized multiple-mode prolate spherical wave functions (PSWFs) multi-carrier with index modulation approach is proposed with the purpose of improving the spectral efficiency of PSWFs multi-carrier systems. The proposed method,based on the optimized multi-index modulation, does not limit the number of signals in the first and second constellations and abandons the concept of limiting the number of signals in different constellations. It successfully increases the spectrum efficiency of the system while expanding the number of modulation symbol combinations and the index dimension of PSWFs signals. The proposed method outperforms the PSWFs multi-carrier index modulation method based on optimized multiple indexes in terms of spectrum efficiency, but at the expense of system computational complexity and bit error performance. For example, with n=10 subcarriers and a bit error rate of 1×10^(-5),spectral efficiency can be raised by roughly 12.4%.展开更多
In this paper,we investigate the(2+1)-dimensional three-component long-wave-short-wave resonance interaction system,which describes complex systems and nonlinear wave phenomena in physics.By employing the Hirota bilin...In this paper,we investigate the(2+1)-dimensional three-component long-wave-short-wave resonance interaction system,which describes complex systems and nonlinear wave phenomena in physics.By employing the Hirota bilinear method,we derive the general nondegenerate N-soliton solution of the system,where each short-wave component contains N arbitrary functions of the independent variable y.The presence of these arbitrary functions in the analytical solution enables the construction of a wide range of nondegenerate soliton types.Finally,we illustrate the structural features of several novel nondegenerate solitons,including M-shaped,multiple double-hump,and sawtooth double-striped solitons,as well as interactions between nondegenerate solitons,such as dromion-like solitons and solitoffs,with the aid of figures.展开更多
Vitamin D,beyond its classical role in calcium homeostasis,has emerged as a key regulator of immune function and epithelial barrier integrity.Its deficiency during early childhood—a critical period for immune maturat...Vitamin D,beyond its classical role in calcium homeostasis,has emerged as a key regulator of immune function and epithelial barrier integrity.Its deficiency during early childhood—a critical period for immune maturation—has been increasingly implicated in the development of atopic diseases.While extensively studied in asthma,its role in non-respiratory allergic conditions such as atopic dermatitis(AD)and allergic rhinitis(AR)remains comparatively underexplored.This minireview synthesizes current mechanistic and clinical evidence on vitamin D in pediatric AD and AR.In AD,vitamin D promotes epidermal barrier function through upregulation of filaggrin and ceramide synthesis,and enhances antimicrobial defense via induction of antimicrobial peptides.Observational studies consistently report lower serum 25-hydroxyvitamin D in affected children,particularly those with allergic sensitization.Select randomized controlled trials suggest clinical improvement with supplementation,especially at doses>2000 IU/day in deficient individuals.In AR,epidemiological data indicate stronger inverse associations with seasonal(pollen-induced)disease.Proposed mechanisms include modulation of dendritic cells,regulatory T cells,T helper 2 cytokines,and mucosal barrier integrity.The shared immunopathogenesis of AD and AR underscores vitamin D’s relevance.Although promising,clinical evidence remains heterogeneous.Future research should prioritize phenotype-stratified trials to clarify optimal dosing,timing,and individual response determinants,including genetics and microbiome composition.展开更多
Functional proteomics can be defined as a strategy to couple proteomic information with biochemical and physiological analyses with the aim of understanding better the functions of proteins in normal and diseased orga...Functional proteomics can be defined as a strategy to couple proteomic information with biochemical and physiological analyses with the aim of understanding better the functions of proteins in normal and diseased organs.In recent years,a variety of publicly available bioinformatics databases have been developed to support protein-related information management and biological knowledge discovery.In addition to being used to annotate the proteome,these resources also offer the opportunity to develop global approaches to the study of the functional role of proteins both in health and disease.Here,we present a comprehensive review of the major human protein bioinformatics databases.We conclude this review by discussing a few examples that illustrate the importance of these databases in functional proteomics research.展开更多
This paper defines a new kind of rule, probability functional dependency rule. The functional dependency degree can be depicted by this kind of rule. Five algorithms, from the simple to the complex, are presefited to ...This paper defines a new kind of rule, probability functional dependency rule. The functional dependency degree can be depicted by this kind of rule. Five algorithms, from the simple to the complex, are presefited to mine this kind of rule in different condition. The related theorems are proved to ensure the high efficiency and the correctness of the above algorithms.展开更多
基金Project supported by the National Natural Science Foundation of China(Grant Nos.61888102,52272172,and 52102193)the Major Program of the National Natural Science Foundation of China(Grant No.92163206)+2 种基金the National Key Research and Development Program of China(Grant Nos.2021YFA1201501 and 2022YFA1204100)the Strategic Priority Research Program of the Chinese Academy of Sciences(Grant No.XDB30000000)the Fundamental Research Funds for the Central Universities.
文摘Discovery of materials using“bottom-up”or“top-down”approach is of great interest in materials science.Layered materials consisting of two-dimensional(2D)building blocks provide a good platform to explore new materials in this respect.In van der Waals(vdW)layered materials,these building blocks are charge neutral and can be isolated from their bulk phase(top-down),but usually grow on substrate.In ionic layered materials,they are charged and usually cannot exist independently but can serve as motifs to construct new materials(bottom-up).In this paper,we introduce our recently constructed databases for 2D material-substrate interface(2DMSI),and 2D charged building blocks.For 2DMSI database,we systematically build a workflow to predict appropriate substrates and their geometries at substrates,and construct the 2DMSI database.For the 2D charged building block database,1208 entries from bulk material database are identified.Information of crystal structure,valence state,source,dimension and so on is provided for each entry with a json format.We also show its application in designing and searching for new functional layered materials.The 2DMSI database,building block database,and designed layered materials are available in Science Data Bank at https://doi.org/10.57760/sciencedb.j00113.00188.
基金financially supported by the National Natural Science Foundation of China (Nos. 92372126,52373203)the Excellent Young Scientists Fund Program
文摘Advancing the integration of artificial intelligence and polymer science requires high-quality,open-source,and large-scale datasets.However,existing polymer databases often suffer from data sparsity,lack of polymer-property labels,and limited accessibility,hindering system-atic modeling across property prediction tasks.Here,we present OpenPoly,a curated experimental polymer database derived from extensive lit-erature mining and manual validation,comprising 3985 unique polymer-property data points spanning 26 key properties.We further develop a multi-task benchmarking framework that evaluates property prediction using four encoding methods and eight representative models.Our re-sults highlight that the optimized degree-of-polymerization encoding coupled with Morgan fingerprints achieves an optimal trade-off between computational cost and accuracy.In data-scarce condition,XGBoost outperforms deep learning models on key properties such as dielectric con-stant,glass transition temperature,melting point,and mechanical strength,achieving R2 scores of 0.65-0.87.To further showcase the practical utility of the database,we propose potential polymers for two energy-relevant applications:high temperature polymer dielectrics and fuel cell membranes.By offering a consistent and accessible benchmark and database,OpenPoly paves the way for more accurate polymer-property modeling and fosters data-driven advances in polymer genome engineering.
文摘In order to implement semantic mapping of database metasearch engines, a system is proposed, which uses ontology as the organization form of information and records the new words not appearing in the ontology. When the new word＇ s frequency of use exceeds the threshold, it is added into the ontology. Ontology expansion is implemented in this way. The search process supports ＂and＂ and ＂or＂ Boolean operations accordingly. In order to improve the mapping speed of the system, a memory module is added which can memorize the recent query information of users and automatically learn the user＇ s query interest during the mapping which can dynamically decide the search order of instances tables. Experiments prove that these measures can obviously reduce the average mapping time.
基金supported by the National Key Research and Development Program of China(No.2016YFD0200-308)the National Key Basic Research Program of China(No.2015CB150501)the Project of Priority and Key Areas,Institute of Soil Science,Chinese Academy of Sciences(Nos.ISSASIP1605 and ISSASIP1640).
文摘Soil metaproteomics has excellent potential as a tool to elucidate the structural and functional changes in soil microbial communities in response to environmental alterations. However, soil metaproteomics is hindered by several challenges and gaps. Soil microbial communities possess extremely complex microbial composition, including many uncultured microorganisms without whole genome sequencing. Thus, how to select a suitable protein sequence database remains challenging in soil metaproteomics. In this study, the Public database and Meta-database were constructed using protein sequences from public databases and metagenomics, respectively. We comprehensively analyzed and compared the soil metaproteomic results using these two kinds of protein sequence databases for protein identification based on published soil metaproteomic raw data. The results demonstrated that many more proteins, higher sequence coverage, and even more microbial species and functional annotations could be identified using the Meta-database compared with those identified using the Public database. These findings indicated that the Meta-database was more specific as a protein sequence database. However, the follow-up in-depth metaproteomic analyses exhibited similar main results regardless of the database used. The microbial community composition at the genus level was similar between the two databases, especially the species annotations with high peptide-spectrum match and high abundance. The functional analyses in response to stress, such as the gene ontology enrichment of biological progress and molecular function and the key functional microorganisms, were also similar regardless of the database. Our analysis revealed that the Public database could also meet the demand to explore the functional responses of microbial proteins to some extent. This study provides valuable insights into the choice of protein sequence databases and their impacts on subsequent bioinformatic analysis in soil metaproteomic research and will facilitate the optimization of experimental design for different purposes.
基金Financial assistance from ICARDA, Morocco, in the form of a brief projectgrant support from the Northern Pulse Growers Association and the USA Dry Pea and Lentil Council are gratefully acknowledged
文摘Lentil(Lens culinaris Medik.), a diploid(2n = 14) with a genome size greater than 4000 Mbp, is an important cool season food legume grown worldwide. The availability of genomic resources is limited in this crop species. The objective of this study was to develop polymorphic markers in lentil using publicly available curated expressed sequence tag information(ESTs). In this study, 9513 ESTs were downloaded from the National Center for Biotechnology Information(NCBI) database to develop unigene-based simple sequence repeat(SSR) markers. The ESTs were assembled into 4053 unigenes and then analyzed to identify 374 SSRs using the MISA microsatellite identification tool. Among the 374 SSRs, 26 compound SSRs were observed.Primer pairs for these SSRs were designed using Primer3 version 1.14. To classify the functional annotation of ESTs and EST–SSRs, BLASTx searches(using E-value 1 × 10-5) against the public UniP rot(http://www.uniprot.org/) and NCBI(http://www.ncbi.nlh.nih.gov/) databases were performed. Further functional annotation was performed using PLAZA(version3.0) comparative genomics and GO annotation was summarized using the Plant GO slim category. Among the synthesized 312 primers, 219 successfully amplified Lens DNA. A diverse panel of 24 Lens genotypes was used to identify polymorphic markers. A polymorphic set of 57 markers successfully discriminated the test genotypes. This set of polymorphic markers with functional annotation data could be used as molecular tools in lentil breeding.
基金Project(51275362)supported by the National Natural Science Foundation of ChinaProject(2013M542055)supported by China Postdoctoral Science Foundation Funded
文摘Modular technology can effectively support the rapid design of products, and it is one of the key technologies to realize mass customization design. With the application of product lifecycle management(PLM) system in enterprises, the product lifecycle data have been effectively managed. However, these data have not been fully utilized in module division, especially for complex machinery products. To solve this problem, a product module mining method for the PLM database is proposed to improve the effect of module division. Firstly, product data are extracted from the PLM database by data extraction algorithm. Then, data normalization and structure logical inspection are used to preprocess the extracted defective data. The preprocessed product data are analyzed and expressed in a matrix for module mining. Finally, the fuzzy c-means clustering(FCM) algorithm is used to generate product modules, which are stored in product module library after module marking and post-processing. The feasibility and effectiveness of the proposed method are verified by a case study of high pressure valve.
文摘1 Introduction Fresh or saline,lakes constantly exchange with other water bodies on the Earth.Together,they form a crucial part of the water cycle–one of the most important ecosystem functions supporting humans and other biological communities.Lakes have provided invaluable and irreplaceable ecosystem services(benefits)for the
基金Funded by the National Natural Science Foundation of China(Grant No.50375071) ,the National Natural Science Foundation of Jiangsu Province Education Department ( Grant No. 2004JD028J) and the Science Foundation of Zhenjiang City( Grant No.2004JD020J)
文摘The paper firstly analyses disadvantages in the traditional Web database systems. And then it puts forward a simplified framework called database-oriented Web framework (DOWF). In this framework, the pages and the data are all managed by database system. In order to get keywords or search a special page, which the users accessed before, users access the static pages by common script procedure (CSP), and access the dynamic pages by functional script procedure (FSP) and CSP. The article expounds the method how to implement DOWF in details. The paper also analyses the mechanism of a DOWF site by implementing a prototype system. At last, the article gives the features of DOWS in search, in security, in reuse of pages and in offline waiting, etc. Key words database-oriented - Web framework - common script procedure (CSP) - functional script procedure (FSP) CLC number TP 391 Foundation item: Supported by Natural Science Foundation of Jiangsu Province (BK2003030).Biography: ZHU Qiao-ming (1963-), male, professor, research direction: Web information processing chinses information processing.
基金supported,in part,by the NationalScience Foundation of China(32270525,31970391the Natural Science Basic Research Program of Shaanxi(2021JM-053,2021JM-212,and 2020JM-280)+1 种基金the Space Science Research and Application of Chinese Manned Space Program(YYWT-0901-EXP-10)the Fundamental Research Funds for the Central Universities(GK201902008).We appreciate all researchers sharing public resources in the iORbase,and constructing and organizing the databases.We kindly thank Wikipedia,PubChem(https://pubchem.ncbi.nlm.nih.gov),Insect Pheromone database(https://www.pherobase.com),Chembl(https://www.ebi.ac.uk/chembl),NCBI assembly database(https://www.ncbi.nlm.nih.gov/assembly),and PyDescriptor(https://ochem.eu)for publicly available information and images.Wethank Dr.Su-Fang Wang from Northwestern Poly-technical University for helpful suggestions in this work.
文摘Insect olfactory receptors(iORs)with atypical 7-transmembrane domains,unlike Chordata olfactory receptors,are not in the GPCR protein family.iORs selectively bind to volatile ligands in the environment and affect essential insect behaviors.In this study,we constructed a new platform(iORbase,https://www.iorbase.com)for the structural and functional analysis of iORs based on a combined algorithm for gene annotation and protein structure prediction.Moreover,it provides the option to calculate the binding affinities and binding residues between iORs and pheromone molecules by virtual screening of docking.Furthermore,iORbase supports the automatic structural and functional prediction of user-submitted iORs or pheromones.iORbase contains the well-analyzed results of approximately 6000 iORs and their 3D protein structures identified from 59 insect species and 2077 insect pheromones from the literature,as well as approximately 12 million pairs of simulated interactions between functional iORs and pheromones.We also built 4 online modules,iORPDB,iInteraction,iModelTM,and iOdorTool to easily retrieve and visualize the 3D structures and interactions.iORbase can help greatly improve the experimental efficiency and success rate,identify new insecticide targets,or develop electronic nose technology.This study will shed light on the olfactory recognition mechanism and evolutionary characteristics from the perspectives of omics and macroevolution.
文摘The authors regret that an error occurred during the preparation of their article:One of the official databases,which was used for functional trait collections,contained an incorrect term–'chametophytes'–for the life form category'chamaephytes'.Unfortunately,this incorrect term was used throughout the article following the nomenclature of this official database:in one instance in the main text,in Fig.3 and its caption,in Fig.5,and in two instances in the supplementary material.
基金supported by the National Natural Science Foundation of China(32301783 and U21A20214)the Natural Science Foundation of Anhui Province(2308085QC91 and 2408085MC058)+3 种基金the Innovation Program of the Chinese Academy of Agricultural Sciences(CAAS-CSIAF202303)the Nanfan special project,CAAS(YYLH2309,YBXM2322,YYLH2401)the Scientific Innovation 2030 Project(2022ZD0401703)the CAAS Innovative Team Award.
文摘Dear Editor,Although traditional breeding methods,such as phenotypebased and marker-assisted selection,remain valuable,genomic selection(GS)has emerged as a promising new approach.To address limitations of GS,particularly the time and cost involved in developing training populations,we developed Rice3KGS,a web-based tool that provides access to diverse datasets and integrates analytical functions to support crop breeding efforts.
文摘Spatial memory is crucial for survival within external surroundings and wild environments.The hippocampus,a critical hub for spatial learning and memory formation,has received extensive investigations on how neuromodulators shape its functions(Teixeira et al.,2018;Zhang et al.,2024).However,the landscape of neuromodulations in the hippocampal system remains poorly understood because most studies focus on classical monoamine neuromodulators,such as acetylcholine,serotonin,dopamine,and noradrenaline.The neuropeptides,comprising the most abundant neuromodulators in the central nervous system,play a pivotal role in neural information processing in the hippocampal system.Cholecystokinin(CCK),one of the most abundant neuropeptides,has been implicated in regulating various physiological and neurobiological statuses(Chen et al.,2019).CCK-A receptor(CCK-AR)and CCK-B receptors(CCK-BR)are two key receptors mediating the biological functions of CCK,both of which belong to class-A sevenfold transmembrane G protein-coupled receptors(Nishimura et al.,2015).CCK-AR preferentially reacts to sulfated CCK,whereas CCK-BR binds both CCK and gastrin with similar affinities(Ding et al.,2022).The expression patterns of CCK-AR and CCK-BR are distinct,implying that CCK has various functions in target regions.For instance,CCK-AR is widely expressed in the GI and brain subregions and is hence implicated in the control of digestive function and satiety regulation.Conversely,CCK-BR is abundantly and widely distributed in the central nervous system,which majorly regulates anxiety,learning,and memory(Ding et al.,2022).However,the roles of endogenous CCK and CCK receptors in regulating hippocampal function at electrophysiological and behavioral levels have received less attention.
文摘To extract and display the significant information of combat systems,this paper introduces the methodology of functional cartography into combat networks and proposes an integrated framework named“functional cartography of heterogeneous combat networks based on the operational chain”(FCBOC).In this framework,a functional module detection algorithm named operational chain-based label propagation algorithm(OCLPA),which considers the cooperation and interactions among combat entities and can thus naturally tackle network heterogeneity,is proposed to identify the functional modules of the network.Then,the nodes and their modules are classified into different roles according to their properties.A case study shows that FCBOC can provide a simplified description of disorderly information of combat networks and enable us to identify their functional and structural network characteristics.The results provide useful information to help commanders make precise and accurate decisions regarding the protection,disintegration or optimization of combat networks.Three algorithms are also compared with OCLPA to show that FCBOC can most effectively find functional modules with practical meaning.
基金National Natural Science Foundation of China(12073028,12473084).
文摘Continuing advancement in astronomy,space exploration,and scientific detection,has increased demand for infrared multi-band detection systems.Traditional three-band optical systems,designed to simultaneously image at infrared short-wave,mid-wave,and long-wave bands typically rely on dispersive elements,leading to bulky sizes,complex system architectures,low efficiency,and challenges in rapid assembly.To overcome these obstacles,in combination with the latest third-generation infrared detectors,we propose a design for a compact and lightweight three-band optical system,with infrared capabilities in all three required bands.The core of this approach is an integrated design philosophy that emphasizes the high steepness of mirror surfaces.This design achieves uniform correction and optimization of chromatic aberration and off-axis aberration across the spectral range.We introduce a novel integration of optical and mechanical elements to replace traditional assembly,reducing manufacturing and assembly errors,and degrees of freedom,associated with high-power optical elements.Confirming the effectiveness through a combination of simulations and experimental comparisons,the measured mid-wave full-field transfer function exceeds 0.405 at 17 lp/mm,satisfying the imaging requirements of the system.The optical system is lightweight and compact,with a total mass under 408 g and a compact volume of justΦ112 mm×117 mm.This serves as a valuable reference for the engineering application of high-performance,compact multi-band infrared composite detection systems for astronomy and space exploration.
基金supported by the China National Postdoctoral Program for Innovative Talents(BX20200039)the Special Fund Project of“Mount Taishan Scholars”Construction Project in Shandong Province(ts20081130).
文摘A generalized multiple-mode prolate spherical wave functions (PSWFs) multi-carrier with index modulation approach is proposed with the purpose of improving the spectral efficiency of PSWFs multi-carrier systems. The proposed method,based on the optimized multi-index modulation, does not limit the number of signals in the first and second constellations and abandons the concept of limiting the number of signals in different constellations. It successfully increases the spectrum efficiency of the system while expanding the number of modulation symbol combinations and the index dimension of PSWFs signals. The proposed method outperforms the PSWFs multi-carrier index modulation method based on optimized multiple indexes in terms of spectrum efficiency, but at the expense of system computational complexity and bit error performance. For example, with n=10 subcarriers and a bit error rate of 1×10^(-5),spectral efficiency can be raised by roughly 12.4%.
基金supported by the National Natural Science Foundation of China,Grant No.12375006。
文摘In this paper,we investigate the(2+1)-dimensional three-component long-wave-short-wave resonance interaction system,which describes complex systems and nonlinear wave phenomena in physics.By employing the Hirota bilinear method,we derive the general nondegenerate N-soliton solution of the system,where each short-wave component contains N arbitrary functions of the independent variable y.The presence of these arbitrary functions in the analytical solution enables the construction of a wide range of nondegenerate soliton types.Finally,we illustrate the structural features of several novel nondegenerate solitons,including M-shaped,multiple double-hump,and sawtooth double-striped solitons,as well as interactions between nondegenerate solitons,such as dromion-like solitons and solitoffs,with the aid of figures.
文摘Vitamin D,beyond its classical role in calcium homeostasis,has emerged as a key regulator of immune function and epithelial barrier integrity.Its deficiency during early childhood—a critical period for immune maturation—has been increasingly implicated in the development of atopic diseases.While extensively studied in asthma,its role in non-respiratory allergic conditions such as atopic dermatitis(AD)and allergic rhinitis(AR)remains comparatively underexplored.This minireview synthesizes current mechanistic and clinical evidence on vitamin D in pediatric AD and AR.In AD,vitamin D promotes epidermal barrier function through upregulation of filaggrin and ceramide synthesis,and enhances antimicrobial defense via induction of antimicrobial peptides.Observational studies consistently report lower serum 25-hydroxyvitamin D in affected children,particularly those with allergic sensitization.Select randomized controlled trials suggest clinical improvement with supplementation,especially at doses>2000 IU/day in deficient individuals.In AR,epidemiological data indicate stronger inverse associations with seasonal(pollen-induced)disease.Proposed mechanisms include modulation of dendritic cells,regulatory T cells,T helper 2 cytokines,and mucosal barrier integrity.The shared immunopathogenesis of AD and AR underscores vitamin D’s relevance.Although promising,clinical evidence remains heterogeneous.Future research should prioritize phenotype-stratified trials to clarify optimal dosing,timing,and individual response determinants,including genetics and microbiome composition.
基金supported by the National Basic Research Program of China (Grant Nos. 2010CB912700 and 2011CB910601)
文摘Functional proteomics can be defined as a strategy to couple proteomic information with biochemical and physiological analyses with the aim of understanding better the functions of proteins in normal and diseased organs.In recent years,a variety of publicly available bioinformatics databases have been developed to support protein-related information management and biological knowledge discovery.In addition to being used to annotate the proteome,these resources also offer the opportunity to develop global approaches to the study of the functional role of proteins both in health and disease.Here,we present a comprehensive review of the major human protein bioinformatics databases.We conclude this review by discussing a few examples that illustrate the importance of these databases in functional proteomics research.
文摘This paper defines a new kind of rule, probability functional dependency rule. The functional dependency degree can be depicted by this kind of rule. Five algorithms, from the simple to the complex, are presefited to mine this kind of rule in different condition. The related theorems are proved to ensure the high efficiency and the correctness of the above algorithms.
