{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,29]],"date-time":"2025-09-29T07:46:36Z","timestamp":1759131996816},"reference-count":19,"publisher":"Oxford University Press (OUP)","issue":"9","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,5,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Computationally, in silico experiments in biology are workflows describing the collaboration of people, data and methods. The Grid and Web services are proposed to be the next generation infrastructure supporting the deployment of bioinformatics workflows. But the growing number of autonomous and heterogeneous services pose challenges to the used middleware w.r.t. composition, i.e. discovery and interoperability of services required within in silico experiments. In the IRIS project, we handle the problem of service interoperability by a semi-automatic procedure for identifying and placing customizable adapters into workflows built by service composition.<\/jats:p>\n               <jats:p>Results: We show the effectiveness and robustness of the software-aided composition procedure by a case study in the field of life science. In this study we combine different database services with different analysis services with the objective of discovering required adapters. Our experiments show that we can identify relevant adapters with high precision and recall.<\/jats:p>\n               <jats:p>Availability: The IRIS software and the profile language can be downloaded from<\/jats:p>\n               <jats:p>Contact: \u00a0ur@iai.uni-bonn.de<\/jats:p>","DOI":"10.1093\/bioinformatics\/btl054","type":"journal-article","created":{"date-parts":[[2006,2,16]],"date-time":"2006-02-16T01:13:15Z","timestamp":1140052395000},"page":"1137-1143","source":"Crossref","is-referenced-by-count":28,"title":["Adapters, shims, and glue\u2014service interoperability for <i>in silico<\/i> experiments"],"prefix":"10.1093","volume":"22","author":[{"given":"U.","family":"Radetzki","sequence":"first","affiliation":[{"name":"Department of Computer Science, University of Bonn 1 \u00a0 1 \u00a0 \u00a0 D-53117 Bonn, Germany"}]},{"given":"U.","family":"Leser","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Humboldt-Universit\u00e4t Berlin 2 \u00a0 2 \u00a0 \u00a0 D-10099 Berlin, Germany"}]},{"given":"S. C.","family":"Schulze-Rauschenbach","sequence":"additional","affiliation":[{"name":"Clinic for Psychiatry and Psychotherapy, University of Bonn Medical Center 3 \u00a0 3 \u00a0 \u00a0 D-53105 Bonn, Germany"}]},{"given":"J.","family":"Zimmermann","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Bonn 1 \u00a0 1 \u00a0 \u00a0 D-53117 Bonn, Germany"}]},{"given":"J.","family":"L\u00fcssem","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Bonn 1 \u00a0 1 \u00a0 \u00a0 D-53117 Bonn, Germany"}]},{"given":"T.","family":"Bode","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Bonn 1 \u00a0 1 \u00a0 \u00a0 D-53117 Bonn, Germany"}]},{"given":"A. B.","family":"Cremers","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Bonn 1 \u00a0 1 \u00a0 \u00a0 D-53117 Bonn, Germany"}]}],"member":"286","published-online":{"date-parts":[[2006,2,15]]},"reference":[{"key":"2023012409142210200_b1","first-page":"164","article-title":"Programming for dependability in a service-based grid","author":"Bausch","year":"2003"},{"key":"2023012409142210200_b2","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-540-24745-6_1","article-title":"An ontology-driven framework for data transformation in scientific workflows","author":"Bowers","year":"2004"},{"key":"2023012409142210200_b3","doi-asserted-by":"crossref","DOI":"10.1016\/B978-012088469-8.50035-8","article-title":"Similarity search for web services","author":"Dong","year":"2004"},{"key":"2023012409142210200_b4","doi-asserted-by":"crossref","first-page":"D5","DOI":"10.1093\/nar\/gki139","article-title":"The molecular biology database collection: 2005 update","volume":"33","author":"Galperin","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"2023012409142210200_b5","article-title":"Corpus-based schema matching","author":"Madhavan","year":"2003"},{"key":"2023012409142210200_b6","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1007\/11568322_3","article-title":"Schema integration based on uncertain semantic mappings","volume":"3716","author":"Magnani","year":"2005","journal-title":"Proceedings of the Conceptual Modeling\u2014ER 2005, LNCS"},{"key":"2023012409142210200_b7","doi-asserted-by":"crossref","first-page":"78","DOI":"10.1145\/373626.373713","article-title":"The clio project: managing heterogenity","volume":"30","author":"Miller","year":"2001","journal-title":"ACM Sigmod Rec."},{"key":"2023012409142210200_b8","doi-asserted-by":"crossref","first-page":"3045","DOI":"10.1093\/bioinformatics\/bth361","article-title":"Taverna: a tool for the composition and enactment of bioinformatics workflows","volume":"20","author":"Oinn","year":"2004","journal-title":"Bioinformatics"},{"key":"2023012409142210200_b9","unstructured":"Radetzki\n              U.\n            \n          \n          Service-interoperability for science applications: identification and adaptation of component-based service mediators\n          2005\n          Germany\n          University of Bonn\n          PhD thesis"},{"key":"2023012409142210200_b10","first-page":"25","article-title":"A service-centric computing environment for heterogeneous biological databases and methods","author":"Radetzki","year":"2003"},{"key":"2023012409142210200_b11","first-page":"752","article-title":"IRIS: a framework for mediator-based composition of service-oriented software","author":"Radetzki","year":"2004"},{"key":"2023012409142210200_b12","first-page":"25","article-title":"IRIS: a mediator-based approach achieving interoperability of web services in life science applications","author":"Radetzki","year":"2004"},{"key":"2023012409142210200_b13","doi-asserted-by":"crossref","first-page":"334","DOI":"10.1007\/s007780100057","article-title":"A survey of approaches to automatic schema matching","volume":"10","author":"Rahm","year":"2001","journal-title":"VLDB J."},{"key":"2023012409142210200_b14","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1093\/bioinformatics\/btg1041","article-title":"myGrid: personalised bioinformatics on the information grid","volume":"19","author":"Stevens","year":"2003","journal-title":"Bioinformatics"},{"key":"2023012409142210200_b15","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1093\/bioinformatics\/bth944","article-title":"Exploring Williams-Beuren syndrome using myGrid","volume":"20","author":"Stevens","year":"2003","journal-title":"Bioinformatics"},{"key":"2023012409142210200_b16","doi-asserted-by":"crossref","first-page":"173","DOI":"10.1023\/A:1014897210525","article-title":"LARKS: dynamic matchmaking among heterogeneous software agents in cyberspace","volume":"5","author":"Sycara","year":"2002","journal-title":"Autonomous Agents Multi-Agent Syst."},{"key":"2023012409142210200_b17","doi-asserted-by":"crossref","first-page":"331","DOI":"10.1093\/bib\/3.4.331","article-title":"BioMOBY: an open-source biological web services proposal","volume":"3","author":"Wilkinson","year":"2002","journal-title":"Briefings Bioinformatics"},{"key":"2023012409142210200_b18","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1104\/pp.104.059170","article-title":"BioMOBY successfully integrates distributed heterogeneous bioinformatics web services. 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