Background

I am an RA at the School of Computing Science, Newcastle University. I am currently working within the iSense project. My main research is in the area of data integration and bioinformatics workflows.

Research Interests

• Comparative genomics
• Cloud computing
• Data Integration
• Data visualisation

Publications

• Flanagan K, Nakjang S, Hallinan J, Harwood C, Hirt RP, Pocock MR, Wipat A. Microbase2.0: a generic framework for computationally intensive bioinformatics workflows in the cloud. Journal of Integrative Bioinformatics 2012, 9(2), 12.
• Flanagan K. [PhD Thesis] A Grid and Cloud-based framework for high throughput bioinformatics. Newcastle upon Tyne: School of Computing Science, University of Newcastle upon Tyne, 2009.
• Sun Y, Wipat A, Pocock M, Lee PA, Flanagan K, Worthington JT. Exploring microbial genome sequences to identify protein families on the grid. IEEE Transactions on Information Technology in Biomedicine 2007, 11(4), 435-442.
• Sun Y, Wipat A, Pocock M, Lee PA, Watson P, Flanagan K, Worthington JT. A grid-based system for microbial genome comparison and analysis. In: IEEE International Symposium on Cluster Computing and the Grid, CCGrid 2005. 2005, Cardiff, Wales: IEEE.
• Sun Y, Wipat A, Pocock M, Lee P, Flanagan K, Worthington J. Exploring Microbial Genome Sequences to Identify Protein Families on the Grid. Newcastle upon Tyne: School of Computing Science, University of Newcastle upon Tyne, 2005. School of Computing Science Technical Report Series 931.
• Sun Y, Wipat A, Pocock M, Lee P, Watson P, Flanagan K, Worthington J. A Grid-based System for Microbial Genome Comparison and Analysis. Newcastle upon Tyne: School of Computing Science, University of Newcastle upon Tyne, 2004. School of Computing Science Technical Report Series 881.
• Wipat A, Sun Y, Pocock M, Lee P, Watson P, Flanagan K. Developing Grid-based Systems for Microbial Genome. In: UK e-Science All Hands Meeting 2004. 2004, Nottingham UK: EPSRC.
• Madsen C, McLaughlin JA, Misirli G, Pocock M, Flanagan K, Hallinan J, Wipat A. The SBOL Stack: A Platform for Storing, Publishing, and Sharing Synthetic Biology Designs. ACS Synthetic Biology 2016, 5(6), 487-497.
• Relton CL, Gaunt T, McArdle W, Ho KR, Duggirala A, Shihab H, Woodward G, Lyttleton O, Evans DM, Reik W, Paul YL, Ficz G, Ozanne SE, Wipat A, Flanagan K, Lister A, Heijmans BT, Ring SM, Smith GD. Data Resource Profile: Accessible Resource for Integrated Epigenomic Studies (ARIES). International Journal of Epidemiology 2015, 44(4), 1181-1190.
• Flanagan K, Cockell S, Harwood C, Hallinan J, Nakjang S, Lawry B, Wipat A. A distributed computational search strategy for the identification of diagnostics targets: Application to finding aptamer targets for methicillin-resistant staphylococci. Journal of Integrative Bioinformatics 2014, 11(2), 242.