Universiteit Leiden

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Katy Wolstencroft

Assistant professor

Naam
Dr. K.J. Wolstencroft
Telefoon
+31 71 527 8926
E-mail
k.j.wolstencroft@liacs.leidenuniv.nl

Katy Wolstencroft works in data and knowledge integration, applying cutting-edge computer science technologies to bioinformatics and Systems Biology research.

Meer informatie over Katy Wolstencroft

I work in data and knowledge integration, applying cutting-edge computer science technologies to bioinformatics and Systems Biology research. Scientific workflows and semantic web technologies (such as ontologies and RDF) can be used to combine, compare and analyse distributed and heterogeneous data, addressing the analysis bottleneck created by the fast-paced development of omics technologies.

My main aims are to exploit the wealth of information already available by developing new and reproducible methods for integration and analysis; and to promote the sharing and better standardisation of life science datasets by developing methods to encourage and streamline standards-compliance.

Assistant professor

  • Wiskunde en Natuurwetenschappen
  • Leiden Inst Advanced Computer Sciences

Werkadres

Snellius
Niels Bohrweg 1
2333 CA Leiden
Kamernummer 111

Contact

  • Thomas S., Wolstencroft K., Bono B. de & Hunter P.J. (2016), A physiome interoperability roadmap for personalized drug development, INTERFACE FOCUS 6(2): 20150094.artikel in tijdschrift (refereed)
  • Hartogh S.C. den, Wolstencroft K.J., Mummery C.L. & Passier R. (2016), A comprehensive gene expression analysis at sequential stages of in vitro cardiac differentiation from isolated MESP1-expressing-mesoderm progenitors, SCIENTIFIC REPORTS 6: 19386.artikel in tijdschrift (refereed)
  • Wilkinson M.D., Dumontier M., Aalbersberg IJ.J., Appleton G., Axton M., Baak A., Blomberg N., Boiten J-W., Silva Santos L.B. da, Bourne P.E., Bouwman J., Brookes A.J., Clark T., Crosas M., Dillo I., Dumon O., Edmunds S., Evelo C.T., Finkers R., Gonzalez-Beltran A., Gray A.J.G., Groth P., Goble C., Grethe J.S., Heringa J., Hoen P.A.C. ‘t, Hooft R., Kuhn T., Kok R., Kok J.N., Lusher S.J., Martone M.E., Mons A., Packer A.L., Persson B., Rocca-Serra P., Roos M., Schaik R. van, Sansone S-A., Schultes E., Sengstag T., Slater T., Strawn G., Swertz M.A., Thompson M., Lei J. van der, Mulligen. E. van, Velterop J., Waagmeester A., Wittenburg P., Wolstencroft K.J., Zhao J. & Mons B. (2016), The FAIR Guiding Principles for scientific data management and stewardship, Scientific Data 2016(3): 160018.artikel in tijdschrift (refereed)
  • Wolstencroft K.J., Owen S., Krebs O., Nguyen Q., Stanford N.J., Golebiewski M., Weidemann A., Bittkowski M., An L., Shockley D., Snoep J.L., Mueller W. & Goble C.A. (2015), SEEK: a systems biology data and model management platform, BMC Systems Biology 9: 33.artikel in tijdschrift (refereed)
  • Mina E., Thompson M., Hettne K.M., Roon-Mom W.M.C. van, Kaliyaperumal R., Horst E. van der, Wolstencroft K.J., Mons B. & Roos M. (2015), Multidisciplinary Collaboration to Facilitate Hypotheses Generation in Huntington's Disease. In: Proceedings 11th IEEE International Conference on e-Science, e-Science 2015.. 118-125.congresbijdrage (refereed)
  • Krebs O., Wolstencroft K.J., Stanford N.J., Morrison N., Golebiewski M., Owen S., Nguyen Q., Snoep J.L., Mueller W. & Goble C.A. (2015), FAIRDOM approach for semantic interoperability of systems biology data and models. In: Proceedings International Conference on Biomedical Ontology, ICBO 2015. nr. CEUR Workshop Proceedings 1515.congresbijdrage (refereed)
  • Stanford N.J., Wolstencroft K.J., Golebiewski M., Kania R., Juty N., Tomlinson C., Owen S., Butcher S., Hermjakob H., Novère N. Le, Mueller W., Snoep J. & Goble C. (2015), The evolution of standards and data management practices in systems biology, MOLECULAR SYSTEMS BIOLOGY 11(12): 851.artikel in tijdschrift (refereed)
  • Vanschoren J., Bischl B., Hutter F., Sebag M., Kegl B., Schmid M., Napolitano G., Wolstencroft K.J., Williams A.R. & Lawrence N. (2015), Towards a Data Science Collaboratory. In: Proceedings of Advances in Intelligent Data Analysis XIV (IDA 2015). nr. LNCS 9385.congresbijdrage (refereed)
  • Kok J.N., Lamprecht A, Turner K.J. & Wolstencroft K.J (2014), Track Introduction: Scientific Workflows, LEVERAGING APPLICATIONS OF FORMAL METHODS, VERIFICATION AND VALIDATION: SPECIALIZED TECHNIQUES AND APPLICATIONS, PT II 8803: 404-406.artikel in tijdschrift (refereed)
  • Hettne KM, Dharuri H, Zhao J, Wolstencroft K, Belhajjame K, Soiland-Reyes S, Mina E, Thompson M, Cruickshank D, Verdes-Montenegro L, Garrido J, de Roure D, Corcho O, Klyne G, van Schouwen R, 't Hoen PA, Bechhofer S, Goble C & Roos M. (2014), Structuring research methods and data with the research object model: genomics workflows as a case study, Journal Biomedical Semantics 15(1): paper number 41.artikel in tijdschrift (refereed)
  • Wolstencroft K.J., Owen S., Krebs O., Mueller W. Nguyen Q., Snoep J.L. & Goble C. (2013), Semantic Data and Models Sharing in Systems Biology: The Just Enough Results Model and the SEEK Platform. In: The Semantic Web-ISWC 2013: Springer-Verlag. 212-227.congresbijdrage (refereed)
  • Wolstencroft K, Owen S, Horridge M, Jupp S, Krebs O, Snoep JL, Preez F, Mueller W, Stevens R & Goble CA (2013), Stealthy annotation of experimental biology by spreadsheets, Concurrency and Computation: Practice and Experience 25(4): 467-480.artikel in tijdschrift (refereed)
  • Wolstencroft K, Haines R, Fellows D, Williams A, Withers D, Owen S, Soiland-Reyes S, Dunlop I, Nenadic A, Fisher P & others (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.artikel in tijdschrift (refereed)
  • Goble C, Bechhofer S & Wolstencroft K (2013), Semantic Web, Interoperability. In: Encyclopedia of Systems Biology: Springer New York. 1921--1925.boekdeel
  • Sansone Susanna-Assunta, Rocca-Serra Philippe, Field Dawn, Maguire Eamonn, Taylor Chris, Hofmann Oliver, Fang Hong, Neumann Steffen, Tong Weida, Amaral-Zettler Linda, Begley Kimberly, Booth Tim, Bougueleret Lydie, Burns Gully, Chapman Brad, Clark Tim, Coleman Lee-Ann, Copeland Jay, Das Sudeshna, de Daruvar Antoine, de Matos Paula, Dix Ian, Edmunds Scott, Evelo Chris T., Forster Mark J., Gaudet Pascale, Gilbert Jack, Goble Carole, Griffin Julian L., Jacob Daniel, Kleinjans Jos, Harland Lee, Haug Kenneth, Hermjakob Henning, Sui Shannan J. Ho, Laederach Alain, Liang Shaoguang, Marshall Stephen, McGrath Annette, Merrill Emily, Reilly Dorothy, Roux Magali, Shamu Caroline E., Shang Catherine A., Steinbeck Christoph, Trefethen Anne, Williams-Jones Bryn, Wolstencroft Katherine, Xenarios Ioannis & Hide Winston (2012), Toward interoperable bioscience data, NATURE GENETICS 44(2): 121-126.artikel in tijdschrift (refereed)
  • Wolstencroft K, Owen S, Horridge M, Müller W, Bacall F, Snoep JL, Preez F, Nguyen Q, Krebs O & Goble CA (2012), RightField: Scientific Knowledge Acquisition by Stealth through Ontology-Enabled Spreadsheets. In: EKAW. 438-441.congresbijdrage (refereed)
  • Hettne KM, Wolstencroft K, Belhajjame K, Goble CA, Mina E, Dharuri H, Roure DD, Verdes-Montenegro L, Garrido J & Roos M (2012), Best Practices for Workflow Design: How to Prevent Workflow Decay. In: SWAT4LS.congresbijdrage (refereed)
  • Wolstencroft K, Owen S, Goble CA, Nguyen Q, Krebs O & Müller W (2012), RightField: Semantic enrichment of Systems Biology data using spreadsheets. In: eScience. 1-8.congresbijdrage (refereed)
  • Wolstencroft K, Owen S, Goble C, Nguyen, Q, Krebs O & Muller W (2012), RightField: Semantic enrichment of Systems Biology data using spreadsheets. In: Proceedings 8th International Conference on E-science: IEEE Computer Society. 1-8.congresbijdrage
  • Jupp S., Horridge M., Iannone L., Klein J., Owen S., Schanstra J., Wolstencroft K.J. & Stevens R. (2012), Populous: a tool for building OWL ontologies from templates, BMC bioinformatics 13(Suppl 1): S5.artikel in tijdschrift (refereed)
  • David DCAW, ROURE D, GOBLE C, ROOS M & Wolstencroft K (2012), Opening new gateways to workflows for life scientists, HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences 175: 131.artikel in tijdschrift (refereed)
  • Wolstencroft K (2012), The Taverna Workbench: Integrating and analysing biological and clinical data with computerised workflows, EMBnet. journal 18(B): p--18.artikel in tijdschrift (refereed)
  • Wolstencroft Katy, Owen Stuart, du Preez Franco, Krebs Olga, Mueller Wolfgang, Goble Carole & Snoep Jacky L. (2011), THE SEEK: A PLATFORM FOR SHARING DATA AND MODELS IN SYSTEMS BIOLOGY, METHODS IN ENZYMOLOGY, VOL 500 500: 629-655.artikel in tijdschrift (refereed)
  • Wolstencroft Katy, Owen Stuart, Horridge Matthew, Krebs Olga, Mueller Wolfgang, Snoep Jacky L., du Preez Franco & Goble Carole (2011), RightField: embedding ontology annotation in spreadsheets, BIOINFORMATICS 27(14): 2021-2022.artikel in tijdschrift (refereed)
  • Jupp S, Horridge M, Iannone L, Klein J, Owen S, Schanstra J, Wolstencroft K & Stevens R (2011), Populous: A Tool for Populating an Ontology. In: ICBO.congresbijdrage (refereed)
  • Krebs O, Wolstencroft K, Owen S, Mueller W, Goble C & Snoep JL (2011), The Just Enough Results Model (JERM) for Systems Biology Data, Department of Bioengineering and Bioinformatics of MV Lomonosov Moscow State University: 178.artikel in tijdschrift (refereed)
  • Neudecker C, Schlarb S, Dogan ZM, Missier P, Sufi S, Williams A & Wolstencroft K (2011), An experimental workflow development platform for historical document digitisation and analysis. In: Proceedings of the 2011 workshop on historical document imaging and processing. 161--168.congresbijdrage (refereed)
  • Du Preez FB, Owen S, Wolstencroft K, Krebs O, Müller W, Goble C & Snoep JL (2011), OneStop: JWS Online’s access point to SBML, SBGN and MIRIAM compliant annotation: Nature Publishing Group.rapport
  • Missier P, Wolstencroft K, Tanoh F, Li P, Bechhofer S, Belhajjame K, Pettifer S & Goble CA (2010), Functional Units: Abstractions for Web Service Annotations. In: SERVICES. 306-313.congresbijdrage (refereed)
  • Roure DD, Goble CA, Aleksejevs S, Bechhofer S, Bhagat J, Cruickshank D, Fisher P, Kollara N, Michaelides DT, Missier P, Newman DR, Ramsden M, Roos M, Wolstencroft K, Zaluska E & Zhao J (2010), The Evolution of myExperiment. In: eScience. 153-160.congresbijdrage (refereed)
  • Bhagat J, Tanoh F, Nzuobontane E, Laurent T, Orlowski J, Roos M, Wolstencroft K, Aleksejevs S, Stevens R, Pettifer S & others (2010), BioCatalogue: a universal catalogue of web services for the life sciences, Nucleic acids research 38(suppl 2): W689--W694.artikel in tijdschrift (refereed)
  • Swertz MA, Velde vdKJ, Tesson BM, Scheltema RA, Arends D, Vera G, Alberts R, Dijkstra M, Schofield P, Schughart K & others (2010), XGAP: a uniform and extensible data model and software platform for genotype and phenotype experiments, Genome Biol 11(3): R27.artikel in tijdschrift (refereed)
  • Jupp S, Horridge M, Iannone L, Klein J, Owen S, Schanstra J, Stevens R & Wolstencroft K (2010), Populous: A tool for populating ontology templates arXiv preprint arXiv:1012.1745.rapport
  • Jupp S, Horridge M, Iannone L, Klein J, Owen S, Schanstra J, Stevens R & Wolstencroft K (2010), Populous: A Tool for Populating Templates for OWL Ontologies.. In: SWAT4LS.congresbijdrage (refereed)
  • Moeller S, Krabbenhoeft H, Tille A, Paleino D, Williams A, Wolstencroft K, Goble C & Plessy C (2010), Community-driven computational biology with debian and taverna. In: BOSC 2010 BOSC 2010.congresbijdrage (refereed)
  • Wolstencroft K, Horridge M, Owen S, Mueller W, Bacall F, Snoep J, Krebs O & Goble C (2010), RightField: Embedding Ontology Term Selection into Spreadsheets for the Annotation of Biological Data. In: 9th International Semantic Web Conference 9th International Semantic Web Conference ISWC 2010. 141.congresbijdrage (refereed)
  • Goderis A, Fisher P, Gibson A, Tanoh F, Wolstencroft K, Roure DD & Goble CA (2009), Benchmarking workflow discovery: a case study from bioinformatics, Concurrency and Computation: Practice and Experience 21(16): 2052-2069.artikel in tijdschrift (refereed)
  • Gibson A, Gamble M, Wolstencroft K, Oinn T, Goble CA, Belhajjame K & Missier P (2009), The data playground: An intuitive workflow specification environment, Future Generation Comp. Syst. 25(4): 453-459.artikel in tijdschrift (refereed)
  • Wassink IHC, Vet PE, Wolstencroft K, Neerincx PBT, Roos M, Rauwerda H & Breit TM (2009), Analysing Scientific Workflows: Why Workflows Not Only Connect Web Services. In: SERVICES I. 314-321.congresbijdrage (refereed)
  • Goble CA, Belhajjame K, Tanoh F, Bhagat J, Wolstencroft K, Stevens R, Nzuobontane E, McWilliam H, Laurent T & Lopez R (2009), BioCatalogue: a curated web service registry for the life science community Nature Precedings: Nature Publishing Group.congresbijdrage (refereed)
  • Wolstencroft K, Fisher P, De Roure D & Goble C (2009), Scientific Workflows. In: Voss A., Vander Meer E., Fergusson D (Red.) Research In a Connected World Research In a Connected World. In Voss A., Vander Meer E., Fergusson D (Eds.).boekdeel
  • Goble C, Wolstencroft K, Owen S, Aleksejevs S, Snoep J, Krebs O, Mueller W & Rojas I (2009), SysMO-DB: A pragmatic approach to sharing information amongst Systems Biology projects in Europe. In: Proceedings of the UK e-Science All Hand Meeting Proceedings of the UK e-Science All Hand Meeting.congresbijdrage (refereed)
  • Goble Carole, Stevens Robert, Hull Duncan, Wolstencroft Katy & Lopez Rodrigo (2008), Data curation process curationdata integration science, BRIEFINGS IN BIOINFORMATICS 9(6): 506-517.artikel in tijdschrift (refereed)
  • Smedley Damian, Swertz Morris A., Wolstencroft Katy, Proctor Glenn, Zouberakis Michael, Bard Jonathan, Hancock John M. & Schofield Paul (2008), Solutions for data integration in functional genomics: a critical assessment and case study, BRIEFINGS IN BIOINFORMATICS 9(6): 532-544.artikel in tijdschrift (refereed)
  • Swertz MA, Smedley D, Wolstencroft K, Alberts R, Zouberakis M, Aidinis V, Schughart K, Schofield PN & Jansen RC (2008), Towards dynamic database infrastructures for mouse genetics. In: BIBE. 1-7.congresbijdrage (refereed)
  • Belhajjame K, Wolstencroft K, Corcho Ó, Oinn T, Tanoh F, Williams A & Goble CA (2008), Metadata Management in the Taverna Workflow System. In: CCGRID. 651-656.congresbijdrage (refereed)
  • Goble C, Stevens R, Hull D, Wolstencroft K & Lopez R (2008), Data curation+ process curation= data integration+ science, Briefings in bioinformatics 9(6): 506--517.artikel in tijdschrift (refereed)
  • Swertz MA, Smedley D, Wolstencroft K, Alberts R, Zouberakis M, Aidinis V, Schughart K, Schofield PN & Jansen RC (2008), in volume 8th IEEE International Conference on BioInformatics and BioEngineering, 2008. BIBE 2008, .artikel in tijdschrift (refereed)
  • Belhajjame K, Goble C, Tanoh F, Bhagat J, Wolstencroft K, Stevens R, Nzuobontane E, McWilliam H, Laurent T & Lopez R (2008), Biocatalogue: A curated web service registry for the life science community, Microsoft eScience conference.artikel in tijdschrift (refereed)
  • Pettifer Steve, Wolstencroft Katy, Alper Pinar, Attwood Teresa, Coletta Alain, Goble Carole, Li Peter, McDermott Philip, Marsh James, Oinn Tom, Sinnott James & Thorne David (2007), (my)Grid and UTOPIA: An integrated approach to enacting and visualising in silico experiments in the life sciences, DATA INTEGRATION IN THE LIFE SCIENCES, PROCEEDINGS 4544: 59-70.artikel in tijdschrift (refereed)
  • Fisher Paul, Hedeler Cornelia, Wolstencroft Katherine, Hulme Helen, Noyes Harry, Kemp Stephen, Stevens Robert & Brass Andrew (2007), A systematic strategy for large-scale analysis of genotype-phenotype correlations: identification of candidate genes involved in African trypanosomiasis, NUCLEIC ACIDS RESEARCH 35(16): 5625-5633.artikel in tijdschrift (refereed)
  • Stevens Robert, Aranguren Mikel Egana, Wolstencroft Katy, Sattler Ulrike, Drummond Nick, Horridge Matthew & Rector Alan (2007), Using OWL to model biological knowledge, INTERNATIONAL JOURNAL OF HUMAN-COMPUTER STUDIES 65(7): 583-594.artikel in tijdschrift (refereed)
  • Gibson A, Wolstencroft K & Stevens R (2007), Promotion of Ontological Comprehension: Exposing Terms and Metadata with Web 2.0. In: CKC.congresbijdrage (refereed)
  • Gibson A, Gamble M, Wolstencroft K, Oinn T & Goble CA (2007), The Data Playground: An Intuitive Workflow Specification Environment. In: eScience. 59-68.congresbijdrage (refereed)
  • Wolstencroft K.J. (2007), Third International Conference on e-Science and Grid Computing, e-Science 2007, 10-13 December 2007, Bangalore, India: IEEE Computer Society.congresbijdrage (refereed)
  • Wolstencroft K, Stevens R & Haarslev V (2007), Applying OWL reasoning to genomic data. In: Semantic Web: Springer US. 225--248.boekdeel
  • Goble C, Wolstencroft K, Goderis A, Hull D, Zhao J, Alper P, Lord P, Wroe C, Belhajjame K, Turi D & others (2007), Knowledge discovery for biology with Taverna. In: Semantic Web: Springer US. 355--395.boekdeel
  • Wolstencroft K, Alper P, Hull D, Wroe C, Lord PW, Stevens RD & Goble CA (2007), The my Grid ontology: bioinformatics service discovery, International journal of bioinformatics research and applications 3(3): 303--325.artikel in tijdschrift (refereed)
  • Fisher P, Hedeler C, Wolstencroft K, Hulme H, Noyes H, Kemp S, Stevens R & Brass A (2007), A systematic strategy for large-scale analysis of genotype--phenotype correlations: identification of candidate genes involved in African trypanosomiasis, Nucleic acids research 35(16): 5625--5633.artikel in tijdschrift (refereed)
  • Fisher P., Hedeler C., Wolstencroft K.J., Hulme H., Noyes H., Kemp S., Stevens R. & Brass A. (2007), A systematic strategy for the discovery of candidate genes responsible for phenotypic variation, BMC bioinformatics 8(Suppl 8): P7.artikel in tijdschrift (refereed)
  • Rose C, Turi D, Williams A, Wolstencroft K & Taylor CJ (2006), Web Services for the DDSM and Digital Mammography Research. In: Digital Mammography / IWDM. 376-383.congresbijdrage (refereed)
  • Hull D, Wolstencroft K, Stevens R, Goble C, Pocock MR, Li P & Oinn T (2006), Taverna: a tool for building and running workflows of services, Nucleic acids research 34(suppl 2): W729--W732.artikel in tijdschrift (refereed)
  • Goble C, Wolstencroft K, Goderis A, Hull D, Zhao J, Alper P, Lord P, Belhajjame K, Turi D, Stevens R & others (2006), Knowledge Discovery for in silico Experiments with Taverna, Semantic web : revolutionizing knowledge discovery in the life sciences .artikel in tijdschrift (refereed)
  • Wolstencroft K, Lord P, Tabernero L, Brass A & Stevens R (2006), Protein classification using ontology classification, Bioinformatics 22(14): e530--e538.artikel in tijdschrift (refereed)
  • Wolstencroft K, McEntire R, Stevens R, Tabernero L & Brass A (2005), Constructing ontology-driven protein family databases, BIOINFORMATICS 21(8): 1685-1692.artikel in tijdschrift (refereed)
  • Wolstencroft K, Brass A, Horrocks I, Lord PW, Sattler U, Turi D & Stevens R (2005), A Little Semantic Web Goes a Long Way in Biology. In: International Semantic Web Conference. 786-800.congresbijdrage (refereed)
  • Wolstencroft K, Oinn TM, Goble CA, Ferris J, Wroe C, Lord PW, Glover K & Stevens R (2005), Panoply of Utilities in Taverna. In: e-Science. 156-162.congresbijdrage (refereed)
  • Taylor C, Rose C, Turi D, Williams A & Wolstencroft K (2005), MIAS-Grid: An e-Science Workbench for Medical Images and Signals Research, Medical Images and Signals IRC: 59.artikel in tijdschrift (refereed)
  • Wolstencroft K, Stevens R & Haarslev V (2005), Chapter\# APPLYING OWL REASONING TO GENOMIC DATA, Semantic web : revolutionizing knowledge discovery in the life sciences .artikel in tijdschrift (refereed)
  • Rose C, Turi D, Williams AR, Wolstencroft K & Taylor C (2005), Web Services for Digital Mammography Research. In: Proceedings of Medical Image Understanding and Analysis 2 Proceedings of Medical Image Understanding and Analysis. 196--200.congresbijdrage (refereed)
  • Wolstencroft K, Stevens R, Tabernero L & Brass A (2005), PhosphaBase: An ontology-driven database resource for protein phosphatases, PROTEINS: Structure, Function, and Bioinformatics 58(2): 290--294.artikel in tijdschrift (refereed)
  • Wolstencroft K, Lord P, Tabernero L, Brass A & Stevens R (2005), Using ontology reasoning to classify protein phosphatases. In: 8th Annual Bio-Ontologies Meeting 8th Annual Bio-Ontologies Meeting. 2005.congresbijdrage (refereed)
  • Wolstencroft K (2005), Ontological methods for structuring and managing protein family resources (Dissertatie. The University of Manchester).dissertatie

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