Taverna: A tool for building and running workflows of services

Nucleic Acids Research

Volumn 34, Issue WEB. SERV. ISS., 2006, Pages

  Hull, Dunca ^b   Wolstencroft, Katy ^b   Stevens, Robert ^b   Goble, Carole ^b   Pocock, Mathew R ^a   Li, Peter ^b   Oinn, Tom ^c  

^a NEWCASTLE UNIVERSITY   (United Kingdom)

^b UNIVERSITY OF MANCHESTER   (United Kingdom)

^c EUROPEAN BIOINFORMATICS INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOINFORMATICS; COMPUTER AIDED DESIGN; COMPUTER INTERFACE; COMPUTER PROGRAM; DATA ANALYSIS; GENETIC DATABASE; GENOME ANALYSIS; INFORMATION RETRIEVAL; INTERNET; MEDICAL INFORMATION; MOLECULAR BIOLOGY; PRIORITY JOURNAL; PROTEIN DATABASE; SEQUENCE ANALYSIS; BIOLOGY; GENOMICS; SYSTEM ANALYSIS;

COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; GENOMICS; INTERNET; SEQUENCE ANALYSIS; SOFTWARE; SYSTEMS INTEGRATION; USER-COMPUTER INTERFACE;

EID: 33747833111     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkl320     Document Type: Article

References (24)

1. Stein,L. (2002) Creating a bioinformatics nation. Nature, 417, 119-120.
2. Alonso,G., Casati,F., Kuno,H. and Machiraju,V. (2004) Web Services: concepts, Architectures and Applications. Data-Centric Systems and Applications. Springer-Verlag, Berlin and Heidelberg GmBH.
3. Hull,D., Stevens,R. and Lord,P. (2005) Describing Web Services for user-oriented retrieval. W3C Workshop on Frameworks for Semantics in Web Services, DERI. Innsbruck, Austria.
4. Hull,D., Stevens,R., Lord,P., Wroe,C. and Goble,C. (2004) Treating shimantic web syndrome with ontologies. In Proceedings of First Advanced Knowledge Technologies Workshop on Semantic Web Services (AKT-SWS04) KMi. The Open University, Milton Keynes, UK.
5. Oinn,T., Addis,M., Ferris,J., Marvin,D., Greenwood,M., Carver,T., Pocock,M.R., Wipat,A. and Li,P. (2004) Taverna: a tool for the composition and enactment of bioinformatics workflows. Bioinformatics, 20, 3045-3054.
6. Oinn,T., Greenwood,M., Addis,M., Ferris,J., Glover,K., Goble,C., Goderis,A., Hull,D., Marvin,D., Li,P. et al. (2005) Taverna: Lessons in creating a workflow environment for the life sciences. Concurr. Comput.: Pract. Exp. In press.
7. Pillai,S., Silventoinen,V., Kallio,K., Senger,M., Sobhany,S., Tate,J., Valenkar,S., Golovin,A., Henrick,K., Rice,P., Stoehr,P. and Lopez,R. (2005) SOAP-based services provided by the European Bioinformatics Institute. Nucleic Acids Res., 33, W25-W28.
8. Wheeler,D.L., Barrett,T., Benson,D.A., Bryant,S.H., Canese,K., Chetvernin,V., Church,D.M., Dicuccio,M., Edgar,R., Federhen,S., Geer,L.Y. et al. (2006) Database resources of the national center for biotechnology information. Nucleic Acids Res., 34, 173-180.
9. Miyazaki,S., Sugawara,H., Ikeo,K., Gojobori,T. and Tateno,Y. (2004) DDBJ in the stream of various biological data. Nucleic Acids Res., 32, 31-34.
10. Kinoshita,K. and Nakamura,H. (2004) eF-site and PDBjViewer: database and viewer for protein functional sites. Bioinformatics, 20, 1329-1330.
11. Kanehisa,M., Goto,S., Hattori,M., Aoki-Kinoshita,K.F., Itoh,M., Kawashima,S., Katayama,T., Araki,M. and Hirakawa,M. (2006) From genomics to chemical genomics: new developments in kegg. Nucleic Acids Rese., 34, 354-357.
12. Durinck,S., Moreau,Y., Kasprzyk,A., Davis,S., De Moor,B., Brazma,A. and Huber,W. (2005) Biomart and bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics, 21, 3439-3440.
13. Eckart,J.D. and Sobral,B.W. (2003) A life scientist's gateway to distributed data management and computing: the pathport/toolbus framework. OMICS, 7, 79-88.
14. Wilkinson,M., Schoof,H., Ernst,R. and Haase,D. (2005) BioMOBY successfully integrates distributed heterogeneous bioinformatics web services. The PlaNet Exemplar Case. Plant Physiol., 138, 5-17.
15. Bader,G.D., Betel,D. and Hogue,C.W. (2003) Bind: the biomolecular interaction network database. Nucleic Acids Res., 31, 248-250.
16. Hu,Z., Fu,Y., Halees,A.S., Kielbasa,S.M. and Weng,Z. (2004) Seqvista: a new module of integrated computational tools for studying transcriptional regulation. Nucleic Acids Res., 32, 235-241.
17. Finn,R.D., Mistry,J., Schuster-Bockler,B., Griffiths-Jones,S., Hollich,V., Lassmann,T., Moxon,S., Marshall,M., Khanna,A., Durbin,R., Eddy,S.R., Sonnhammer,E.L. and Bateman,A. (2006) Pfam: clans, web tools and services. Nucleic Acids Res., 34, D247-D251.
18. Burge,C. and Karlin,S. (1997) Prediction of complete gene structures in human genomic DNA. J. Mol. Biol., 268, 78-94.
19. Stevens,R.D., Tipney,H.J., Wroe,C., Oinn,T., Senger,M., Lord,P.W., Goble,C.A., Brass,A. and Tassabehji,M. (2004) Exploring Williams-Beuren Syndrome Using myGrid. Bioinformatics, 20, i303-i310.
20. Li,P., Hawyward,K., Jennings,C., Owen,K., Oinn,T., Stevens,R., Pearce,S. and Wipat,A. (2004) Association of variations in I kappa B-epsilon with Graves' disease using classical myGrid methodologies. Proceedings UK e-Science programme All Hands Meeting, Nottingham, UK, 832-839.
21. Clark,T., Martin,S. and Liefeld,T. (2004) Globally distributed object identification for biological knowledgebases. Brief Bioinform., 5, 59-70.
22. Wolstencroft,K., Oinn,T., Goble,C., Ferris,J., Wroe,C., Lord,P., Glover,K. and Stevens,R. (2005) Panoply of utilities in taverna. First International Conference on e-Science and Grid Computing (e-Science'05), Melbourne, Australia, 156-162.
23. Hancock,D., Wilson,M., Velarde,G., Morrison,N., Hayes,A., Hulme,H., Wood,A.J., Nashar,K., Kell,D.B. and Brass,A. (2005) maxdload2 and maxdbrowse: standards-compliant tools for microarray experimental annotation, data management and dissemination. BMC Bioinformatics, 6, 264.
24. Ihaka,R. and Gentleman,R. (1996) R: A language for data analysis and graphics. J. Compu. Graph. Statistics, 5, 299-314.