Pineapple occupies an important phylogenetic position as its reference genome is a model for studying the evolution the Bromeliaceae family and the crassulacean acid metabolism(CAM)photosynthesis.Here,we developed a p...Pineapple occupies an important phylogenetic position as its reference genome is a model for studying the evolution the Bromeliaceae family and the crassulacean acid metabolism(CAM)photosynthesis.Here,we developed a pineapple genomics database(PGD,http://gffzzf3bb806060964046huo5bp9qfxuwv6v55.ffgz.tsg.suse.edu.cn/pineapple/html/index.html)as a central online platform for storing and integrating genomic,transcriptomic,function annotation and genetic marker data for pineapple(Ananas comosus(L.)Merr.).The PGD currently hosts significant search tools and available datasets for researchers to study comparative genomics,gene expression,gene co-expression molecular marker,and gene annotation of A.comosus(L).PGD also performed a series of additional pages for a genomic browser that visualizes genomic data interactively,bulk data download,a detailed user manual,and data integration information.PGD was developed with the capacity to integrate future data resources,and will be used as a long-term and open access database to facilitate the study of the biology,distribution,and the evolution of pineapple and the relative plant species.An email-based helpdesk is also available to offer support with the website and requests of specific datasets from the research community.展开更多
This paper presents a case study on structure design and establishment of database application system for alien species in Shandong Province, integrating with Geographic Information System, computer network, and datab...This paper presents a case study on structure design and establishment of database application system for alien species in Shandong Province, integrating with Geographic Information System, computer network, and database technology to the research of alien species. The modules of alien species database, including classified data input, statistics and analysis, species pictures and distribution maps, and out date input, were approached by Visual Studio.net 2003 and Microsoft SQL server 2000. The alien species information contains the information of classification, species distinction characteristics, biological characteristics, original area, distribution area, the entering fashion and route, invasion time, invasion reason, interaction with the endemic species, growth state, danger state and spatial information, i.e. distribution map. Based on the above bases, several models including application, checking, modifying, printing, adding and returning models were developed. Furthermore, through the establishment of index tables and index maps, we can also spatially query the data like picture, text and GIS map data. This research established the technological platform of sharing information about scientific resource of alien species in Shandong Province, offering the basis for the dynamic inquiry of alien species, the warning technology of prevention and the fast reaction system. The database application system possessed the principles of good practicability, friendly user interface and convenient usage. It can supply full and accurate information inquiry services of alien species for the users and provide functions of dynamically managing the database for the administrator.展开更多
Common wheat(Triticum aestivum) is a hexaploid plant(AABBDD) derived from genetically related tetraploid wheat T. turgidum(AABB) and a diploid goatgrass Aegilops tauschii(DD). Recent advances in sequencing technology ...Common wheat(Triticum aestivum) is a hexaploid plant(AABBDD) derived from genetically related tetraploid wheat T. turgidum(AABB) and a diploid goatgrass Aegilops tauschii(DD). Recent advances in sequencing technology and genome assembly strategies allow the acquisition of multiple wheat genomes, calling for a centralized database to store, manage and query the genomics information in a manner to reflect their evolutionary relationship and to perform effective comparative genome analysis. Here,we built WheatGene, a database that contains five wheat genomes of 318,102 genes and 945,900 transcripts and their expression information in 998 RNA-seq samples that can be searched and compared in an interactive manner. WheatGene was developed with Drupal, a popular content management system and the toolkit Tripal managed the biological information. The database was accessible through a web browser with species, search, gene expression, tools, and literature entries. Tools available were BLAST,synteny viewer, map viewer, JBrowse, data downloads, gene expression heatmap and bar chart, and homologs viewer. Moreover, the map viewer connected genomics data with genetic maps and QTL that can be searched for markers for molecular breeding. WheatGene was developed with open-source modules and libraries. WheatGene is available at http://gffzz808acca90e7644cahuo5bp9qfxuwv6v55.ffgz.tsg.suse.edu.cn.展开更多
In order to design a new kind of mobile database management system (DBMS)more suitable for mobile computing than the existent DBMS, the essence of database systems in mobilecomputing is analyzed. An opinion is introdu...In order to design a new kind of mobile database management system (DBMS)more suitable for mobile computing than the existent DBMS, the essence of database systems in mobilecomputing is analyzed. An opinion is introduced that the mobile database is a kind of dynamicdistributed database, and the concept of virtual servers to translate the clients' mobility to theservers' mobility is proposed. Based on these opinions, a kind of architecture of mobile DBMS, whichis of versatility, is presented. The architecture is composed of a virtual server and a local DBMS,the virtual server is the kernel of the architecture and its functions are described. Eventually,the server kernel of a mobile DBMS prototype is illustrated.展开更多
基金The authors would like to thank Irene Lavagi for editing the language.The study was supported by grants from the 863 program(2013AA102604),NSFC(31201260)Program for New Century Excellent Talents in Fujian Province and Science and Technology Major Project of Fujian Province(2016NZ0001).
摘要Pineapple occupies an important phylogenetic position as its reference genome is a model for studying the evolution the Bromeliaceae family and the crassulacean acid metabolism(CAM)photosynthesis.Here,we developed a pineapple genomics database(PGD,http://gffzzf3bb806060964046huo5bp9qfxuwv6v55.ffgz.tsg.suse.edu.cn/pineapple/html/index.html)as a central online platform for storing and integrating genomic,transcriptomic,function annotation and genetic marker data for pineapple(Ananas comosus(L.)Merr.).The PGD currently hosts significant search tools and available datasets for researchers to study comparative genomics,gene expression,gene co-expression molecular marker,and gene annotation of A.comosus(L).PGD also performed a series of additional pages for a genomic browser that visualizes genomic data interactively,bulk data download,a detailed user manual,and data integration information.PGD was developed with the capacity to integrate future data resources,and will be used as a long-term and open access database to facilitate the study of the biology,distribution,and the evolution of pineapple and the relative plant species.An email-based helpdesk is also available to offer support with the website and requests of specific datasets from the research community.
基金this study was supported by the Key Project of Natu-ral Science Foundation of Shandong Province(No. Z2003D05)Key Project of Environmental Protection Science of Shandong Province(No. 2004057)Outstanding Young Scientists Grants of Shandong Province(No.2005BS08010),China
摘要This paper presents a case study on structure design and establishment of database application system for alien species in Shandong Province, integrating with Geographic Information System, computer network, and database technology to the research of alien species. The modules of alien species database, including classified data input, statistics and analysis, species pictures and distribution maps, and out date input, were approached by Visual Studio.net 2003 and Microsoft SQL server 2000. The alien species information contains the information of classification, species distinction characteristics, biological characteristics, original area, distribution area, the entering fashion and route, invasion time, invasion reason, interaction with the endemic species, growth state, danger state and spatial information, i.e. distribution map. Based on the above bases, several models including application, checking, modifying, printing, adding and returning models were developed. Furthermore, through the establishment of index tables and index maps, we can also spatially query the data like picture, text and GIS map data. This research established the technological platform of sharing information about scientific resource of alien species in Shandong Province, offering the basis for the dynamic inquiry of alien species, the warning technology of prevention and the fast reaction system. The database application system possessed the principles of good practicability, friendly user interface and convenient usage. It can supply full and accurate information inquiry services of alien species for the users and provide functions of dynamically managing the database for the administrator.
基金financially supported by National Key Research and Development Program of China (2016YFD0101004)Agricultural Science and Technology Innovation Program of Chinese Academy of Agricultural Sciencessupported by the Chinese Government Scholarship。
摘要Common wheat(Triticum aestivum) is a hexaploid plant(AABBDD) derived from genetically related tetraploid wheat T. turgidum(AABB) and a diploid goatgrass Aegilops tauschii(DD). Recent advances in sequencing technology and genome assembly strategies allow the acquisition of multiple wheat genomes, calling for a centralized database to store, manage and query the genomics information in a manner to reflect their evolutionary relationship and to perform effective comparative genome analysis. Here,we built WheatGene, a database that contains five wheat genomes of 318,102 genes and 945,900 transcripts and their expression information in 998 RNA-seq samples that can be searched and compared in an interactive manner. WheatGene was developed with Drupal, a popular content management system and the toolkit Tripal managed the biological information. The database was accessible through a web browser with species, search, gene expression, tools, and literature entries. Tools available were BLAST,synteny viewer, map viewer, JBrowse, data downloads, gene expression heatmap and bar chart, and homologs viewer. Moreover, the map viewer connected genomics data with genetic maps and QTL that can be searched for markers for molecular breeding. WheatGene was developed with open-source modules and libraries. WheatGene is available at http://gffzz808acca90e7644cahuo5bp9qfxuwv6v55.ffgz.tsg.suse.edu.cn.
摘要In order to design a new kind of mobile database management system (DBMS)more suitable for mobile computing than the existent DBMS, the essence of database systems in mobilecomputing is analyzed. An opinion is introduced that the mobile database is a kind of dynamicdistributed database, and the concept of virtual servers to translate the clients' mobility to theservers' mobility is proposed. Based on these opinions, a kind of architecture of mobile DBMS, whichis of versatility, is presented. The architecture is composed of a virtual server and a local DBMS,the virtual server is the kernel of the architecture and its functions are described. Eventually,the server kernel of a mobile DBMS prototype is illustrated.