{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,12,19]],"date-time":"2023-12-19T00:41:34Z","timestamp":1702946494755},"reference-count":28,"publisher":"Springer Science and Business Media LLC","issue":"S1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2014,1]]},"DOI":"10.1186\/1471-2105-15-s1-s12","type":"journal-article","created":{"date-parts":[[2014,1,10]],"date-time":"2014-01-10T13:59:02Z","timestamp":1389362342000},"source":"Crossref","is-referenced-by-count":10,"title":["Distilling structure in Taverna scientific workflows: a refactoring approach"],"prefix":"10.1186","volume":"15","author":[{"given":"Sarah","family":"Cohen-Boulakia","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jiuqiang","family":"Chen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paolo","family":"Missier","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carole","family":"Goble","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Alan R","family":"Williams","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christine","family":"Froidevaux","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2014,1,10]]},"reference":[{"issue":"Web-Server","key":"6255_CR1","doi-asserted-by":"publisher","first-page":"729","DOI":"10.1093\/nar\/gkl320","volume":"34","author":"D Hull","year":"2006","unstructured":"Hull D, Wolstencroft K, Stevens R, Goble CA, Pocock MR, Li P, Oinn T: Taverna: a tool for building and running workflows of services. Nucleic Acids Res. 2006, 34 (Web-Server): 729-732.","journal-title":"Nucleic Acids Res"},{"issue":"8","key":"6255_CR2","first-page":"438","volume":"11","author":"J Goecks","year":"2011","unstructured":"Goecks J, Nekrutenko A, Taylor J: Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol. 2011, 11 (8): 438-462.","journal-title":"Genome Biol"},{"issue":"10","key":"6255_CR3","doi-asserted-by":"publisher","first-page":"1039","DOI":"10.1002\/cpe.994","volume":"18","author":"B Lud\u00e4scher","year":"2006","unstructured":"Lud\u00e4scher B, Altintas I, Berkley C, Higgins D, Jaeger E, Jones MB, Lee EA, Tao J, Zhao Y: Scientific workflow management and the Kepler system. Concurr Comput. 2006, 18 (10): 1039-1065. 10.1002\/cpe.994.","journal-title":"Concurr Comput"},{"key":"6255_CR4","first-page":"745","volume-title":"Proceedings of the ACM-Sigmod International Conference on Management of Data","author":"SP Callahan","year":"2006","unstructured":"Callahan SP, Freire J, Santos E, Scheidegger CE, Silva CT, Vo HT: VisTrails: visualization meets data management. Proceedings of the ACM-Sigmod International Conference on Management of Data. 2006, 745-747."},{"key":"6255_CR5","unstructured":"The Knime workflow system. [\n                    http:\/\/www.knime.com\/\n                    \n                  ]"},{"key":"6255_CR6","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1007\/978-3-642-31235-9_24","volume-title":"Proceedings of the International Conference on Scientific and Statistical Database Management (SSDBM)","author":"J Starlinger","year":"2012","unstructured":"Starlinger J, Cohen-Boulakia S, Leser U: (Re)Use in Public Scientific Workflow Repositories. Proceedings of the International Conference on Scientific and Statistical Database Management (SSDBM). 2012, Lecture Notes in Computer Science, 7338: 361-378."},{"issue":"2","key":"6255_CR7","doi-asserted-by":"publisher","first-page":"6","DOI":"10.1145\/2034863.2034865","volume":"40","author":"S Cohen-Boulakia","year":"2011","unstructured":"Cohen-Boulakia S, Leser U: Search, adapt, and reuse: the future of scientific workflows. SIGMOD Record. 2011, 40 (2): 6-16. 10.1145\/2034863.2034865.","journal-title":"SIGMOD Record"},{"issue":"2","key":"6255_CR8","doi-asserted-by":"publisher","first-page":"92","DOI":"10.2218\/ijdc.v7i2.232","volume":"7","author":"R Littauer","year":"2012","unstructured":"Littauer R, Ram K, Lud\u00e4scher B, Michener W, Koskela R: Trends in Use of Scientific Workflows: Insights from a Public Repository and Recommendations for Best Practice. Int Journal of Digital Curation. 2012, 7 (2): 92-100. 10.2218\/ijdc.v7i2.232.","journal-title":"Int Journal of Digital Curation"},{"key":"6255_CR9","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1007\/978-3-642-13818-8_33","volume-title":"Proceedings of the International Conference on Scientific and Statistical Database Management (SSDBM)","author":"P Missier","year":"2010","unstructured":"Missier P, Soiland-Reyes S, Owen S, Tan W, Nenadic A, Dunlop I, Williams A, Oinn T, Goble C: Taverna, reloaded. Proceedings of the International Conference on Scientific and Statistical Database Management (SSDBM). 2010, Lecture Notes in Computer Science, 6187: 471-481."},{"issue":"5","key":"6255_CR10","doi-asserted-by":"publisher","first-page":"561","DOI":"10.1016\/j.future.2008.06.010","volume":"25","author":"DD Roure","year":"2009","unstructured":"Roure DD, Goble CA, Stevens R: The design and realisation of the myExperiment Virtual Research Environment for social sharing of workflows. Future Gener Comput Syst. 2009, 25 (5): 561-567. 10.1016\/j.future.2008.06.010.","journal-title":"Future Gener Comput Syst"},{"key":"6255_CR11","first-page":"1","volume-title":"Proceedings of the IEEE International Conference on E-Science (e-Science)","author":"J Zhao","year":"2012","unstructured":"Zhao J, G\u00f3mez-P\u00e9rez JM, Belhajjame K, Klyne G, Garc\u00eda-Cuesta E, Garrido A, Hettne KM, Roos M, Roure DD, Goble CA: Why workflows break - Understanding and combating decay in Taverna workflows. Proceedings of the IEEE International Conference on E-Science (e-Science). 2012, IEEE Computer Society, 1-9."},{"key":"6255_CR12","doi-asserted-by":"publisher","first-page":"299","DOI":"10.1145\/1739041.1739079","volume-title":"Proceedings of the International Conference on Extending Database Technology (EDBT)","author":"P Missier","year":"2010","unstructured":"Missier P, Paton NW, Belhajjame K: Fine-grained and efficient lineage querying of collection-based workflow provenance. Proceedings of the International Conference on Extending Database Technology (EDBT). 2010, 299-310."},{"key":"6255_CR13","first-page":"1","volume-title":"Proceedings of the ACM Symposium on Theory of Computing (STOC)","author":"J Valdes","year":"1979","unstructured":"Valdes J, Tarjan RE, Lawler EL: The recognition of Series Parallel digraphs. Proceedings of the ACM Symposium on Theory of Computing (STOC). 1979, 1-12."},{"key":"6255_CR14","first-page":"1072","volume-title":"Procedings of the IEEE International Conference on Data Engineering (ICDE)","author":"O Biton","year":"2008","unstructured":"Biton O, Cohen-Boulakia S, Davidson SB, Hara CS: Querying and Managing Provenance through User Views in Scientific Workflows. Procedings of the IEEE International Conference on Data Engineering (ICDE). 2008, 1072-1081."},{"key":"6255_CR15","first-page":"808","volume-title":"Proceedings of the IEEE International Conference on Data Engineering (ICDE)","author":"Z Bao","year":"2009","unstructured":"Bao Z, Cohen-Boulakia S, Davidson SB, Eyal A, Khanna S: Differencing Provenance in Scientific Workflows. Proceedings of the IEEE International Conference on Data Engineering (ICDE). 2009, 808-819."},{"key":"6255_CR16","first-page":"1","volume-title":"Proc of the IEEE International Conference on E-Science (e-Science)","author":"S Cohen-Boulakia","year":"2012","unstructured":"Cohen-Boulakia S, Froidevaux C, Chen J: Scientific workflow rewriting while preserving provenance. Proc of the IEEE International Conference on E-Science (e-Science). 2012, IEEE Computer Society, 1-9."},{"issue":"6","key":"6255_CR17","doi-asserted-by":"publisher","first-page":"1112","DOI":"10.1137\/0221065","volume":"21","author":"WW Bein","year":"1992","unstructured":"Bein WW, Kamburowski J, Stallmann MFM: Optimal Reductions of Two-Terminal Directed Acyclic Graphs. SIAM J Comput. 1992, 21 (6): 1112-1129. 10.1137\/0221065.","journal-title":"SIAM J Comput"},{"issue":"Suppl B","key":"6255_CR18","first-page":"100","volume":"18","author":"S Cohen-Boulakia","year":"2012","unstructured":"Cohen-Boulakia S, Froidevaux C, Goble C, Williams A, Chen J: Distilling scientific workflow structure. EMBNet.journal, Proceedings of the International Workshop on Network Tools and Applications in Biology, NETTAB 2012. 2012, 18 (Suppl B): 100-102.","journal-title":"EMBNet.journal, Proceedings of the International Workshop on Network Tools and Applications in Biology, NETTAB 2012"},{"issue":"3","key":"6255_CR19","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1007\/s00165-010-0161-4","volume":"23","author":"WMP van der Aalst","year":"2011","unstructured":"van der Aalst WMP, van Hee KM, ter Hofstede AHM, Sidorova N, Verbeek HMW, Voorhoeve M, Wynn MT: Soundness of workflow nets: classification, decidability, and analysis. Formal Aspects of Comput. 2011, 23 (3): 333-363. 10.1007\/s00165-010-0161-4.","journal-title":"Formal Aspects of Comput"},{"key":"6255_CR20","doi-asserted-by":"publisher","first-page":"425","DOI":"10.1007\/978-3-642-02144-2_34","volume-title":"Proceedings of the International Conference on Advanced Information Systems Engineering (CAiSE)","author":"N Tr\u010dka","year":"2009","unstructured":"Tr\u010dka N, Aalst WM, Sidorova N: Data-Flow Anti-patterns: Discovering Data-Flow Errors in Workflows. Proceedings of the International Conference on Advanced Information Systems Engineering (CAiSE). 2009, Lecture Notes in Computer Science, Springer-Verlag, 5565: 425-439. 10.1007\/978-3-642-02144-2_34."},{"key":"6255_CR21","volume-title":"Tech rep","author":"S Migliorini","year":"2011","unstructured":"Migliorini S, Gambini M, Rosa ML, ter Hofstede AH: Pattern-based evaluation of scientific workflow management systems. Tech rep. 2011"},{"key":"6255_CR22","volume-title":"WANDS, International Workshop on Workflow Approaches to New Data-centric Science (ACM SIGMOD)","author":"L Ramakrishnan","year":"2010","unstructured":"Ramakrishnan L, Plale B: A Multi-Dimensional Classification Model for Workflow Characteristics. WANDS, International Workshop on Workflow Approaches to New Data-centric Science (ACM SIGMOD). 2010"},{"key":"6255_CR23","first-page":"1","volume-title":"Proceedings of the IEEE International Conference on E-Science (e-Science)","author":"D Garijo","year":"2012","unstructured":"Garijo D, Alper P, Belhajjame K, Corcho \u00d3, Gil Y, Goble CA: Common motifs in scientific workflows: An empirical analysis. Proceedings of the IEEE International Conference on E-Science (e-Science). 2012, IEEE Computer Society, 1-8."},{"key":"6255_CR24","doi-asserted-by":"publisher","first-page":"163","DOI":"10.1186\/1471-2105-13-163","volume":"13","author":"MR Rodrigues","year":"2012","unstructured":"Rodrigues MR, Magalh\u00e3es WCS, Machado M, Tarazona-Santos E: A graph-based approach for designing extensible pipelines. BMC Bioinformatics. 2012, 13: 163-10.1186\/1471-2105-13-163.","journal-title":"BMC Bioinformatics"},{"key":"6255_CR25","first-page":"321","volume-title":"IEEE 2nd International Congress on Big Data","author":"P Alper","year":"2013","unstructured":"Alper P, Belhajjame K, Goble C, Karagoz P: Small Is Beautiful: Summarizing Scientific Workflows Using Semantic Annotations. IEEE 2nd International Congress on Big Data. 2013, 321-328."},{"issue":"3","key":"6255_CR26","doi-asserted-by":"publisher","first-page":"682","DOI":"10.1016\/j.future.2012.08.015","volume":"29","author":"G Juve","year":"2013","unstructured":"Juve G, Chervenak AL, Deelman E, Bharathi S, Mehta G, Vahi K: Characterizing and profiling scientific workflows. Future Gener Comput Syst. 2013, 29 (3): 682-692. 10.1016\/j.future.2012.08.015.","journal-title":"Future Gener Comput Syst"},{"key":"6255_CR27","first-page":"470","volume-title":"Proceedings of ICSOC\/ServiceWave","author":"IHC Wassink","year":"2009","unstructured":"Wassink IHC, Ooms M, van der Vet PE: Designing Workflows on the Fly Using e-BioFlow. Proceedings of ICSOC\/ServiceWave. 2009, Lecture Notes in Computer Science, 5900: 470-484."},{"issue":"4","key":"6255_CR28","doi-asserted-by":"publisher","first-page":"453","DOI":"10.1016\/j.future.2008.09.009","volume":"25","author":"A Gibson","year":"2009","unstructured":"Gibson A, Gamble M, Wolstencroft K, Oinn T, Goble CA, Belhajjame K, Missier P: The data playground: An intuitive workflow specification environment. Future Gener Comput Syst. 2009, 25 (4): 453-459. 10.1016\/j.future.2008.09.009.","journal-title":"Future Gener Comput Syst"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-15-S1-S12.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,23]],"date-time":"2019-01-23T01:28:54Z","timestamp":1548206934000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-15-S1-S12"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,1]]},"references-count":28,"journal-issue":{"issue":"S1","published-print":{"date-parts":[[2014,1]]}},"alternative-id":["6255"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-15-s1-s12","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,1]]},"article-number":"S12"}}