6514016
ERGDB: Estrogen Responsive Genes Database
ERGDB is an integrated knowledge database dedicated to genes responsive to estrogen. Genes included in ERGDB are those whose expression levels are experimentally proven to be either up-regulated or down-regulated by estrogen. Genes included are identified based on publications from the PubMed database and each record has been manually examined, evaluated and selected for inclusion by biologists. ERGDB aims to be a unified gateway to store, search, retrieve and update information about estrogen responsive genes. Each record contains links to relevant databases, such as GenBank, LocusLink, Refseq, PubMed and ATCC. The unique feature of ERGDB is that it contains information on the dependence of gene reactions on experimental conditions. In addition to basic information about the genes, information for each record includes gene functional description, experimental methods used, tissue or cell type, gene reaction, estrogen exposure time and the summary of putative estrogen response elements if the gene's promoter sequence was available. Through a web interface at http://sdmc.i2r.a-star.edu.sg/ergdb/ cgi-bin/explore.pl users can either browse or query ERGDB. Access is free for academic and non-profit users.
2552931
KBERG: KnowledgeBase for Estrogen Responsive Genes
Estrogen has a profound impact on human physiology affecting transcription of numerous genes. To decipher functional characteristics of estrogen responsive genes, we developed KnowledgeBase for Estrogen Responsive Genes (KBERG). Genes in KBERG were derived from Estrogen Responsive Gene Database (ERGDB) and were analyzed from multiple aspects. We explored the possible transcription regulation mechanism by capturing highly conserved promoter motifs across orthologous genes, using promoter regions that cover the range of [−1200, +500] relative to the transcription start sites. The motif detection is based on ab initio discovery of common cis-elements from the orthologous gene cluster from human, mouse and rat, thus reflecting a degree of promoter sequence preservation during evolution. The identified motifs are linked to transcription factor binding sites based on the TRANSFAC database. In addition, KBERG uses two established ontology systems, GO and eVOC, to associate genes with their function. Users may assess gene functionality through the description terms in GO. Alternatively, they can gain gene co-expression information through evidence from human EST libraries via eVOC. KBERG is a user-friendly system that provides links to other relevant resources such as ERGDB, UniGene, Entrez Gene, HomoloGene, GO, eVOC and GenBank, and thus offers a platform for functional exploration and potential annotation of genes responsive to estrogen. KBERG database can be accessed at .
206594725
QoS-Driven Web Service Composition with Inter Service Conflicts
Web service composition provides a way to build value-added services and web applications by integrating and composing existing web services. In a two-stage approach for web service composition, an abstract specification is synthesized in the first phase and an executable composition process is generated in the second phase by selecting and binding a concrete web service for each abstract task. However, the selection of a web service for one task is not a stand-alone operation, as there may be compatibility conflicts between this service and services chosen for other tasks. This paper gives a method for dynamic web service selection in the presence of inter service dependencies and conflicts. Firstly, a method based on Integer Programming is discussed to implement the process of dynamic service selection. Then, inter service conflicts are explored and expressed formally, which are accommodated into the IP-based method. By combing domain specific service conflicts into a two-stage approach, the method in this paper provides a united approach for dynamic service selection that can integrate both QoS constraints and other domain specific constraints. Experiments show that this method is effective and efficient.
19615100
WebGIS-RBDL - A Rare Book Digital Library Supporting Spatio-Temporary Retrieval
In order to help researchers of humanities study the cultural ancient resources from temporal and geographical perspectives, we build WebGIS-RBDL at Peking University. In WebGIS-RBDL, metadata records and historical map layers are linked together, and therefore users can get more spatio-temporal information about rare books through folded map layers, including historical maps, modern maps and landform images. In this paper, the architecture of WebGIS-RBDL is introduced. Then, the principles, rules and methods for metadata extracting and correlating in WebGIS-RBDL are discussed. Furthermore, efficient tools to extract spatio-temporal information automatically from rare-book metadata are developed. The WebGIS-RBDL can be extended to include other ancient collections easily. Our efforts show that using GIS in digital libraries is a new and promising method to build more effective user-friendly interfaces in digital libraries.