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Recent publications


This list is provided for archival purposes. For an updated list of publications from 2013 onwards, see the eScience lab publications

2014

Cherian Mathew , Anton Güntsch , Matthias Obst , Saverio Vicario , Robert Haines, Alan R. Williams, Yde de Jong, Carole Goble: A semi-automated workflow for biodiversity data retrieval, cleaning, and quality control. Biodiversity Data Journal 12/2014; 2:e4221. doi: 10.3897/BDJ.2.e4221
Kristina M Hettne, Harish Dharuri, Jun Zhao, Katherine Wolstencroft, Khalid Belhajjame, Stian Soiland-Reyes, Eleni Mina, Mark Thompson, Don Cruickshank, Lourdes Verdes-Montenegro, Julian Garrido, David de Roure, Oscar Corcho, Graham Klyne, Reinout van Schouwen, Peter A `t Hoen, Sean Bechhofer, Carole Goble, Marco Roos: Structuring research methods and data with the research object model: genomics workflows as a case study. Journal of Biomedical Semantics 2014, 5:41. doi:10.1186/2041-1480-5-41 [preprint]
Rutger Aldo Vos, Jordan Valkov Biserkov, Bachir   Balech, Niall   Beard, Matthew   Blissett, Christian   Brenninkmeijer, Tom   van Dooren, David   Eades, George   Gosline, Quentin John Groom, Thomas D. Hamann, Hannes   Hettling, Robert   Hoehndorf, Ayco   Holleman, Peter   Hovenkamp, Patricia   Kelbert, David   King, Don   Kirkup, Youri   Lammers, Thibaut   DeMeulemeester, Daniel   Mietchen, Jeremy A. Miller, Ross   Mounce, Nicola   Nicolson, Rod   Page, Aleksandra   Pawlik, Serrano   Pereira, Lyubomir   Penev, Kevin   Richards, Guido   Sautter, David Peter Shorthouse, Marko   Tähtinen, Claus   Weiland, Alan R. Williams, Soraya   Sierra (2014): Enriched biodiversity data as a resource and service Biodiversity Data Journal 2: e1125 (16 Jun 2014) doi:10.3897/BDJ.2.e1125
Cohen-Boulakia, S.; Chen, J,; Missier, P.; Goble, C; Williams, A.R.; Froidevaux, C. (2014): Distilling structure in Taverna scientific workflows: a refactoring approach. BMC Bioinformatics 15 (Suppl 1), S12. doi:10.1186/1471-2105-15-S1-S12
Pinar Alper, Carole A Goble, Khalid Belhajjame (2014): On assisting scientific data curation in collection-based dataflows using labels. Proceedings of the 8th Workshop on Workflows in Support of Large-Scale Science. pp 7-16 doi:10.1145/2534248.2534249

Daniel Garijo, Pinar Alper, Khalid Belhajjame, Oscar Corcho, Yolanda Gil, Carole Goble (2013): Common motifs in scientific workflows: An empirical analysis. Future Generation Computer Systems, 36 pp 338-351. doi:10.1016/j.future.2013.09.018 [preprint]

Kevin R. Page, Raul Palma, Piotr Hołubowicz, Graham Klyne, Stian Soiland-Reyes, Daniel Garijo, Khalid Belhajjame, and Rudolf Mayer: Research Objects for Audio Processing: Capturing Semantics for Reproducibility, 53rd Audio Engineering Society International Conference on Semantic Audio, January 2014. ISBN: 978-0-937803-96-7 [Proceedings] [Preprint]

Steffen Möller, Enis Afgan, Michael Banck, Raoul J P Bonnal, Timothy Booth, John Chilton, Peter J A Cock, Markus Gumbel, Nomi Harris, Richard Holland, Matúš Kalaš, László Kaján, David R. Powell, Pjotr Prins, Jacqueline Quinn, Olivier Sallou, Francesco Strozzi, Torsten Seemann, Clare Sloggett, Stian Soiland-Reyes, Sascha Steinbiss, Andreas Tille, Anthony J. Travis, Roman Valls Guimera, Toshiaki Katayama, Brad A. Chapman: Community-driven development for computational biology at Sprints, Hackathons and Codefests. BMC Bioinformatics 15(Suppl 14):S7 Supplement NETTAB 2013.  doi:10.1186/1471-2105-15-S14-S7

 

2013

Paolo Ciccarese, Stian Soiland-Reyes, Khalid Belhajjame, Alasdair JG Gray, Carole Goble, Tim Clark (2013): PAV ontology: provenance, authoring and versioning Journal of biomedical semantics 4 (1), 37doi:10.1186/2041-1480-4-37 [pdf] 
Bechhofer, S.; Buchan, I.; Roure, D. D.; Missier, P.; Ainsworth, J.; Bhagat, J.; Couch, P.; Cruickshank, D.; Delderfield, M.; Dunlop, I.; Gamble, M.; Michaelides, D.; Owen, S.; Newman, D.; Sufi, S. & Goble, C. (2013), Why linked data is not enough for scientists, Future Generation Computer Systems  29(2), 599 - 611. doi:10.1016/j.future.2011.08.004 [preprint]
Belhajjame, K.; Zhao, J.; Garijo, D.; Garrido, A.; Soiland-Reyes, S.; Alper, P. & Corcho, O. (2013), A workflow PROV-corpus based on taverna and wings, Proceedings of the Joint EDBT/ICDT 2013 Workshops, ACM, New York, NY, USA, pp. 331–332. doi:10.1145/2457317.2457376  [pdf]
Blanc, A.; Brooke, J.; Fellows, D.; Soldati, M.; Perez-Suarez, D.; Marassi, A. & Santin, A. (2013), 'Workflows for Heliophysics, Journal of Grid Computing 11(3), 481-503. doi:10.1007/s10723-013-9256-5
Brenninkmeijer, C.; Evelo, C.; Goble, C.; Gray, A.; Groth, P.; Pettifer, S.; Stevens, R.; Williams, A. & Willighagen, E. (2013): Scientific Lenses: An Approach to Dynamically Vary the Relationships between Datasets, Intelligent Systems for Molecular Biology and European Conference on Computational Biology  (ISMB/ECCB 2013), Berlin, Germany, July 2013.. [pdf]
Clark, T.; Ciccarese, P. & Goble, C. A. (2013), Micropublications: a Semantic Model for Claims, Evidence, Arguments and Annotations in Biomedical Communications, CoRR  arXiv:1305.3506 doi:10.1186/2041-1480-5-28 [preprint] [pdf]
Gray, A.; Groth, P.; Loizou, A.; Askjaer, S.; Brenninkmeijer, C.; Burger, K.; Chichester, C.; Evelo, C.; Goble, C.; Harland, L.; Pettifer, S.; Thompson, M.; Waagmeester, A. & Williams, A. (2013): Applying linked data approaches to pharmacology, Semantic Web 5(3), 1–13. [pdf] [journal]
Wolstencroft, K.; Haines, R.; Fellows, D.; Williams, A.; Withers, D.; Owen, S.; Soiland-Reyes, S.; Dunlop, I.; Nenadic, A.; Fisher, P.; Bhagat, J.; Belhajjame, K.; Bacall, F.; Hardisty, A.; Nieva de la Hidalga, A.; Balcazar Vargas, M. P.; Sufi, S. & Goble, C. (2013): The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud, Nucleic Acids Research 41(W1), W557-W561. doi:10.1093/nar/gkt328 [pdf]
Zhang, H.; Soiland-Reyes, S. & Goble, C. (2013), Taverna Mobile: Taverna workflows on Android, EMBnet.journal 19(B). doi:10.14806/ej.19.B.727 [pdf]

Ciccarese P, Soiland-Reyes S, Clark T. Web Annotation as a First Class Object. IEEE Internet Computing. 2013 December; 17(6): 71-75. DOI:10.1109/MIC.2013.123 [preprint] arXiv:1310.6555

 

See also the complete publications list.

 

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