Amanda Clare BA (Oxon), MSc( Edinburgh), PhD

Senior Lecturer

Contact Details

Room Number..........:  E37
Building....................:  Llandinam
Phone.......................:   +44 (0)1970 622429
E-Mail........................:   afc
Home Page...............:   Personal

Research Groups

Teaching Areas

Modules Taught

  • CS12510: Functional Programming
  • CS24400: Scientific Python
  • CS24420: Scientific Python
  • CSM0120: Programming for Scientists
  • MA25200: Introduction to Numerical Analysis and its applications
  • MA25220: Introduction to Numerical Analysis and its applications
  • MT25200: Cyflwyniad i Ddadansoddiad Rhifiadol a'i gymhwysiadau
  • MT25220: Cyflwyniad i Ddadansoddiad Rhifiadol a'i gymhwysiadau

Publications

2017

Donkin, E., Dennis, P., Ustalakov, A., Warren, J., Clare, A. 2017. Replicating complex agent based models, a formidable task. Environmental Modelling and Software 92 pp. 142-151. 10.1016/j.envsoft.2017.01.020 Cadair

Ravenscroft, J.E., Liakata, M., Clare, A., Duma, D. 2017. Measuring scientific impact beyond academia: An assessment of existing impact metrics and proposed improvements. PLoS One e0173152 10.1371/journal.pone.0173152 Cadair

2016

Donkin, E., Warren, J., Dennis, P., Clare, A. 2016. Meta-data analysis of plant trait databases: how are such databases used and how can they be improved? British Ecological Society. Other Cadair

Veneman, J.B., Saetnan, E., Clare, A., Newbold, C. 2016. MitiGate; an online meta-analysis database for quantification of mitigation strategies for enteric methane emissions. Science of the Total Environment 572 pp. 1166-1174. 10.1016/j.scitotenv.2016.08.029 Cadair

Duma, D., Liakata, M., Clare, A., Ravenscroft, J., Klein, E. 2016. Rhetorical Classification of Anchor Text for Citation Recommendation. D-Lib Magazine 22 (9/10) 10.1045/september2016-duma Cadair

Nicholls, S.M., Clare, A., Randall, J. 2016. Goldilocks: A tool for identifying genomic regions that are ‘just right’. Bioinformatics 32 (13) pp. 2047-2049. 10.1093/bioinformatics/btw116 Cadair

2015

Aubrey, W., Riley, M., Young, M., King, R.D., Oliver, S.G., Clare, A. 2015. A Tool for Multiple Targeted Genome Deletions that Is Precise, Scar-Free, and Suitable for Automation. PLoS One 10 (12) 0142494 10.1371/journal.pone.0142494 Cadair

Sapstead, S., Daniel, I., Clare, A. 2015. Automatically Geotagging Articles in the Welsh Newspapers Online Collection. In M. Bramer., M. Petridis. (eds) Research and Development in Intelligent Systems XXXII: Incorporating Applications and Innovations in Intelligent Systems XXIII. Springer Nature pp. 367-373. 10.1007/978-3-319-25032-8_28 Cadair

2014

Runciman, C., Clare, A., Harkness, R. 2014. Laboratory Automation in a Functional Programming Language. SLAS Technology 19 (6) pp. 569-576. 10.1177/2211068214543373 Other Cadair

2013

Ravenscroft, J., Liakata, M., Clare, A.J. 2013. Partridge: An effective system for the automatic classification of the types of academic papers. In M. Bramer., M. Petridis. (eds) Research and Development in Intelligent Systems XXX: Incorporating Applications and Innovations in Intelligent Systems XXI Proceedings of AI-2013, The Thirty-third SGAI International Conference on Innovative Techniques and Applications of Artificial Intelligence. AI-2013: The Thirty-third SGAI International Conference. Springer Nature pp. 351-358. 10.1007/978-3-319-02621-3_26 Other Other Other Cadair

Riley, M.C., Aubrey, W., Young, M., Clare, A. 2013. PD5: a general purpose library for primer design software. PLoS One 8 (11) e80156 10.1371/journal.pone.0080156 Cadair

2012

Sparkes, A.C., Clare, A.J. 2012. AutoLabDB: a substantial open source database schema to support a high-throughput automated laboratory. Bioinformatics 28 (10) pp. 1390-1397. 10.1093/bioinformatics/bts140 Cadair

2011

Clare, A., Croset, S., Grabmueller, C., Kafkas, S., Liakata, M., Oellrich, A., Rebholz-Schuhmann, D. 2011. Exploring the Generation and Integration of Publishable Scientic Facts Using the Concept of Nano-publications. Sepublica (workshop of Extended Semantic Web Conference). Cadair

2010

Pir, P., Dobson, P.D., Smallbone, K., Mendes, P., King, R.D., Lu, C., Oliver, S.G., Clare, A. 2010. Constraint-based optimisation tools for semi-automated refinement of genome-scale yeast metabolic models. Cadair

Alsberg, B., Clare, A.J. 2010. Wiki based management of chemometric research projects. Journal of Chemometrics 24 (7-8) 11th Scandinavian Symposium on Chemometrics. pp. 408-417. 10.1002/cem.1298 Cadair

Sparkes, A.C., King, R.D., Aubrey, W., Benway, M., Byrne, E.L., Clare, A.J., Liakata, M., Markham, M., Whelan, K.E., Young, M., Rowland, J. 2010. An Integrated Laboratory Robotic System for Autonomous Discovery of Gene Function. Journal of The Association for Laboratory Automation 15 (1) pp. 33-40. 10.1016/j.jala.2009.10.001 Cadair

Sparkes, A.C., Aubrey, W., Byrne, E.L., Clare, A.J., Khan, M., Liakata, M., Markham, M., Rowland, J., Soldatova, L.N., Whelan, K.E., Young, M., King, R.D. 2010. Towards Robot Scientists for autonomous scientific discovery. Automated Experimentation 2 (1) pp. 1759-4499. 10.1186/1759-4499-2-1 Cadair Other

2009

Byrne, E.L., Liakata, M., Whelan, K.E., Oliver, S.G., Rowland, J.J., Aubrey, W., Soldatova, L.N., Sparkes, A.C., Young, M., Markham, M., Clare, A.J., Pir, P., King, R.D. 2009. Letters - Make way for robot scientists. Science 325 (5943) pp. p945. 10.1126/science.325_945a Cadair

King, R.D., Rowland, J.J., Aubrey, W., Liakata, M., Markham, M., Soldatova, L.N., Whelan, K.E., Clare, A.J., Young, M., Sparkes, A.C., Oliver, S., Pir, P. 2009. The Robot Scientist Adam. Computer 42 (8) pp. 46-54. 10.1109/MC.2009.270 Cadair Other

King, R.D., Rowland, J.J., Oliver, S.G., Young, M., Aubrey, W., Byrne, E.L., Liakata, M., Markham, M., Pir, P., Soldatova, L.N., Sparkes, A.C., Whelan, K.E., Clare, A.J. 2009. The Automation of Science. Science 324 (5923) pp. 85-89. 10.1126/science.1165620 Cadair Other

2008

Soldatova, L.N., Aubrey, W., King, R.D., Clare, A.J. 2008. The EXACT description of biomedical protocols. Bioinformatics 24 (13) pp. i295-i303. 10.1093/bioinformatics/btn156 Cadair

2007

Riley, M.C., Clare, A., King, R.D. 2007. Locational distribution of gene functional classes in Arabidopsis thaliana. BMC Bioinformatics 8 112 10.1186/1471-2105-8-112 Cadair Other

2006

Clare, A.J., Karwath, A., Ougham, H.J., King, R.D. 2006. Functional bioinformatics for Arabidopsis thaliana. Bioinformatics 22 (9) pp. 1130-1136. 10.1093/bioinformatics/btl051 Cadair Other

Soldatova, L., Clare, A., Sparkes, A., King, R.D. 2006. An ontology for a Robot Scientist. Bioinformatics 22 (14) pp. 464-471. 10.1093/bioinformatics/btl207 Cadair Other

Džeroski, S., Blockeel, H., Clare, A., Leander, S., Struyf, J. 2006. Decision Trees for Hierarchical Multilabel Classification: A Case Study in Functional Genomics. Knowledge Discovery in Databases: PKDD 2006. Springer Nature pp. 18-29. 10.1007/11871637_7 Cadair Other

2005

Clare, A. 2005. Integration of genomic and phenotypic data. Data Analysis and Visualization in Genomics and Proteomics. Wiley pp. 0-470. Cadair

Clare, A., Džeroski, S., Struyf, J., Blockeel, H. 2005. Hierarchical Multi-classification with Predictive Clustering Trees in Functional Genomics. Cadair

King, R.D., Whelan, K., Clare, A., Rowland, J.J. 2005. The Robot Scientist 'Adam'. Other Cadair

2004

Clare, A., Williams, H.E., Lester, N. 2004. Scalable Multi-Relational Association Mining. Cadair

King, R.D., Wise, P.H., Clare, A. 2004. Confirmation of Data Mining Based Predictions of Protein Function. Bioinformatics 20 (7) pp. 1110-1118. Cadair

2003

King, R.D., Clare, A. 2003. Predicting gene function in Saccharomyces cerevisiae. Bioinformatics 19 (S2) pp. 42-49. 10.1093/bioinformatics/btg1058 Cadair

Clare, A., King, R.D. 2003. Data mining the yeast genome in a lazy functional language. Cadair

2002

Clare, A., King, R.D. 2002. How well do we understand the clusters found in microarray data? In Silico Biology 2 (4) pp. 511-522. Cadair Other

Clare, A., King, R.D. 2002. Machine learning of functional class from phenotype data. Bioinformatics 18 (1) pp. 160-166. 10.1093/bioinformatics/18.1.160 Cadair

2000

King, R., Karwath, A., Clare, A., Dehaspe, L. 2000. Accurate prediction of protein functional class from sequence in the <i>Mycobacterium tuberculosis</i> and <i>Escherichia coli</i> genomes using data mining. Yeast 17 (4) pp. 283-293. 10.1002/1097-0061(200012)17:4<283::AID-YEA52>3.0.CO;2-F Cadair