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Adapting the Galaxy Bioinformatics Tool to Support Semantic Web Service Composition

Rui Wang, Douglas Brewer, Shefali Shastri, Srikalyan Swayampakula, John A. Miller, Eileen T. Kraemer, Jessica C. Kissinger
2009 2009 Congress on Services - I  
We adapt a bioinformatics tool called Galaxy, to support semantic Web service composition. A semi-automatic approach for semantic Web service composition is utilized.  ...  As the availability of Web services for the biological domain increases, the need emerges for a Web service composition designer that is easy for biologists to use.  ...  We would like to thank James Taylor for his valuable insights into the Galaxy tool.  ... 
doi:10.1109/services-i.2009.114 dblp:conf/services/WangBSSMKK09 fatcat:yprbo6kdzzeizmtjw7rn6sgmlm

A Pattern-Based Approach to Protocol Mediation for Web Services Composition

Xitong Li, Stuart E. Madnick, Quan Z. Sheng, Yushun Fan
2008 Social Science Research Network  
Moreover, a prototype system, namely Service Mediation Toolkit (SMT), is implemented to validate the feasibility and effectiveness of our approach.  ...  In this paper, a systematic approach based on mediator patterns is proposed to generate executable mediators and glue partially compatible services together.  ...  As an extension of our previous work, we aim at developing a systematic approach to (semi-)automatically generating mediators for reconciling all possible protocol mismatches.  ... 
doi:10.2139/ssrn.1269038 fatcat:s5nrbzte4beinjgdzgdikahwiq

The Denodo Data Integration Platform [chapter]

Alberto Pan, Juan Raposo, Manuel Álvarez, Paula Montoto, Vicente Orjales, Justo Hidalgo, Lucía Ardao, Anastasio Molano, Ángel Viña
2002 VLDB '02: Proceedings of the 28th International Conference on Very Large Databases  
DENODO Corporation has developed a mediator system for the construction of semi-structured and structured data integration applications.  ...  Nevertheless, this information is usually scattered, heterogeneous and weakly structured, so it is difficult to process it automatically.  ...  The wrapper generation process for Web sources, JDBC, XML databases and structured or semi-structured text files is performed with the assistance of a semi-automatic generation tool which enables wrappers  ... 
doi:10.1016/b978-155860869-6/50097-4 dblp:conf/vldb/PanRAMOHAMV02 fatcat:xdpqmf6o6jfbhkst5jg63a3yem

Exploiting Metrics for Similarity-Based Semantic Web Service Discovery

Stefan Dietze, Alessio Gugliotta, John Domingue
2009 2009 IEEE International Conference on Web Services  
Since current approaches to mediate between distinct service annotations rely either on manual one-to-one mappings or on semi-automatic mappings based on the exploitation of linguistic or structural similarities  ...  Given a set of SWS and their respective MS grounding, a general-purpose mediator automatically computes similarities to identify the most appropriate SWS for a given request.  ...  Specifically, the overall procedure of providing SWS following our approach is based on the following steps: S1 Whereas S1 and S2 are foreseen within the SWS vision in general, S3 represents an additional  ... 
doi:10.1109/icws.2009.26 dblp:conf/icws/DietzeGD09 fatcat:g54622tjtvalzjcxibthtoupcm

Wrapper generation for semi-structured Internet sources

Naveen Ashish, Craig A. Knoblock
1997 SIGMOD record  
However, we can provide database-like querying for semi-structured WWW sources by building wrappers around these sources. We present an approach for semi-automatically generating such wrappers.  ...  We demonstrate the ease with which we are able to build wrappers for a number of internet sources in different domains using our implemented wrapper generation toolkit. ful to have the capability of issuing  ...  Acknowledgements We would like to thank Steve Minton and the other members of the SIMS and Ariadne projects for their contributions to this work.  ... 
doi:10.1145/271074.271078 fatcat:3fek26paxfd4fbe6kph4ih2lhu

A Software Engineering Approach to Design and Development of Semantic Web Service Applications [chapter]

Marco Brambilla, Irene Celino, Stefano Ceri, Dario Cerizza, Emanuele Della Valle, Federico Michele Facca
2006 Lecture Notes in Computer Science  
In particular, we propose to exploit existing standards for the specification of business processes (e.g., BPMN), for modeling the cross enterprise process, combined with powerful methodologies, tools  ...  and notations (e.g., WebML) borrowed from the Web engineering field for designing and developing semantically rich Web applications, with semi-automatic elicitation of semantic descriptions (i.e., WSMO  ...  Design of Semantic Web Service Applications This section describes our proposal for semi-automatically generating WSMOcompliant semantic specifications of a Web application.  ... 
doi:10.1007/11926078_13 fatcat:yec3sho3rjbj3itzpekwgrqbxe

Web Services Composition Methods and Techniques: A Review

Narges Hesami Rostami, Esmaeil Kheirkhah, Mehrdad Jalali
2013 International Journal of Computer Science Engineering and Information Technology  
However, it is one of big challenge problems of recent years in a distributed and dynamic environment. The various approaches in field of web service compositions proposed by the researchers.  ...  In this paper we present a review of existing approaches for web service composition and compare them among each other with respect to some key requirements.  ...  In this paper, we provide an overview of service composition methods and approaches and we discuss the advantages and disadvantages of each investigated paper. time Based on CODE GENERATION Semi-automatic  ... 
doi:10.5121/ijcseit.2013.3603 fatcat:rcuixm4zgvhdroylc3uqeib7k4

WS-BioZard: A Wizard for Composing Bioinformatics Web Services

Zhiming Wang, John A. Miller, Jessica C. Kissinger, Rui Wang, Douglas Brewer, Cristina Aurrecoechea
2008 2008 IEEE Congress on Services - Part I  
Recently, we have seen an increasing amount of interest in the composition of biological Web services in order to process a biological task.  ...  As the amount of biological data continues to increase, how biologists share data and analysis tools efficiently is becoming an important issue.  ...  The semi-automatic approach sits between these two approaches.  ... 
doi:10.1109/services-1.2008.69 dblp:conf/services/WangMKWBA08 fatcat:guh4nyeirrbz7motu5vsyjbsti

Data integration for virtual enterprise in cyberworlds

Cheng Leong Ang, R. Gay, O. Sourina
2005 2005 International Conference on Cyberworlds (CW'05)  
Virtual Enterprise enables companies to collaborate through sharing of resources, and therefore allows them to enjoy the benefits of virtual integration. The essence of  ...  Our aim is to develop a prototype of an ontology-learning system for the semi-automatic, if not fully automatic, generation of ontologies, and to implement it as an integral part of the proposed ontology-based  ...  The mediated ontology approach adopted imposes three specific requirements on the methodology: 1) the methodology must be able to support the systematic integration through mediation of a large number  ... 
doi:10.1109/cw.2005.36 dblp:conf/cw/AngGS05 fatcat:66obmzpmkvghbazumaxxvzgvbu

Ontology-based Collaborative Inter-organizational Knowledge Management Network

Nelson K. Y. Leung, Seung Hwan Kang, Sim Kim Lau, Joshua Fan
2009 Interdisciplinary Journal of Information, Knowledge, and Management  
The incorporation of ontology and its mediation methods in the network allows organizations to reuse the interorganizational knowledge to support individual organizational knowledge management processes  ...  Some knowledge management approaches are industry specific, theoretical and procedure-wise without consideration of system interoperation.  ...  As semi-automatic tool is not capable of supporting mediation on-the-fly, it would be ideal to perform mediation automatically.  ... 
doi:10.28945/699 fatcat:r3qm7pnjorfmxhqiybdzqry3si

Reconciling Protocol Mismatches of Web Services by Using Mediators

Xitong Li, Yushun Fan, Stuart E. Madnick, Quan Z. Sheng
2009 Social Science Research Network  
To this end, an approach based on mediator patterns is proposed to develop mediators for reconciling protocol mismatches of partially compatible services and mediating them together.  ...  The main steps of the reconciliation approach are presented. Abstrait Les services de Web ne sont pas toujours exactement compatibles et les disparités entre eux devraient être adressées.  ...  Few of these approaches can be used to automatically generate deployable codes. Additionally, none of them provides a systematic solution to reconciliation of protocol mismatches.  ... 
doi:10.2139/ssrn.1356154 fatcat:t7n5limzenaaxkcvujtghw2rpq

A mediator-based approach to ontology generation and querying of molecular and phenotypic cereals data

Antonio Sala, Sonia Bergamaschi
2009 International Journal of Metadata, Semantics and Ontologies  
The GS can be queried transparently w.r.t. the integrated data sources by using an easy-to-use graphical interface regardless of the specific languages of the source databases, and allows combining molecular  ...  Information integration is performed in a semi-automatic way creating a Global virtual Schema (GS), that can be seen as an ontology of the underlying data sources, for which mapping rules and integrity  ...  ACKNOWLEDGEMENT The work presented in this paper has been supported by the Emilia Romagna P.R.R.I.I.T.T. through the CEREALAB laboratory (Non-GM Biotechnologies Laboratory for the Seed Industry) and the  ... 
doi:10.1504/ijmso.2009.026257 fatcat:r642w4dcb5dbdeflbduft6dkuq

Ontology Mediation, Merging, and Aligning [chapter]

Jos de Bruijn, Marc Ehrig, Cristina Feier, Francisco Martíns-Recuerda, François Scharffe, Moritz Weiten
2006 Semantic Web Technologies  
This chapter reviews the work which has been done in the three mentioned areas and proposes an integrated approach to ontology mediation in the area of knowledge management.  ...  An algorithm, which generalizes current state-of-the-art alignment algorithms, is developed for the (semi-)automated discovery of such mappings.  ...  In the next section we present a semi-automatic approach to the specification of ontology mappings.  ... 
doi:10.1002/047003033x.ch6 fatcat:xxwi7ivagvhfph2h2lsgj6xxry

An Ontology-Based Collaborative Inter-Organisational Knowledge Management Network (CIK-NET)

Nelson K. Y. Leung, Sim Kim Lau, Nicole Tsang
2013 Journal of Information & Knowledge Management  
In this paper, ontology and its mediation methods are proposed to overcome the limitation of "knowledge islands" so that organizations are able to reuse the retrieved inter-organizational knowledge in  ...  A number of knowledge management approaches have been developed with the purpose of managing organizational knowledge.  ...  In general, semi-automatic mediation tools suggest a list of possible actions for ontology merging based on computational results of similarity but the final decision on choosing the most suitable action  ... 
doi:10.1142/s0219649213500056 fatcat:acwprcno4ramtnrxq7j6wxmvuu

Creating Visualizations through Ontology Mapping

Sean M. Falconer, R. Ian Bull, Lars Grammel, Margaret-Anne Storey
2009 2009 International Conference on Complex, Intelligent and Software Intensive Systems  
We explore how to support the creation of customized visualizations of ontology instance data through the specification of ontology mappings.  ...  The feasibility of our approach is demonstrated by extending an existing ontology mapping tool, COGZ, to translate ontology mappings into software model transformation rules.  ...  In contrast, our approach is semi-automatic and enables humans to create and control the mapping from the ontology to the visualization.  ... 
doi:10.1109/cisis.2009.40 dblp:conf/cisis/FalconerBGS09 fatcat:rjfdds5fancapltadz3ijp5sza
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