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2015
A. Sirbu, Crane, M., and Ruskin, H. J., “Data Integration for Microarrays: Enhanced Inference for Gene Regulatory Networks”, Microarrays, vol. 4, pp. 255–269, 2015.
2014
A. Sirbu, Crane, M., and Ruskin, H. J., “EGIA–Evolutionary Optimisation of Gene Regulatory Networks, an Integrative Approach”, in Complex Networks V, Springer International Publishing, 2014, pp. 217–229.
2012
A. Sirbu, Ruskin, H. J., and Crane, M., “Integrating heterogeneous gene expression data for gene regulatory network modelling.”, Theory Biosci, vol. 131, pp. 95-102, 2012.
A. Sirbu, Kerr, G., Crane, M., and Ruskin, H. J., “RNA-Seq vs dual- and single-channel microarray data: sensitivity analysis for differential expression and clustering.”, PLoS One, vol. 7, p. e50986, 2012.
D. Marbach, Costello, J. C., Küffner, R., Vega, N. M., Prill, R. J., Camacho, D. M., Allison, K. R., Kellis, M., Collins, J. J., Aderhold, A., Stolovitzky, G., Bonneau, R., Chen, Y., Cordero, F., Crane, M., Dondelinger, F., Drton, M., Esposito, R., Foygel, R., De La Fuente, A., Gertheiss, J., Geurts, P., Greenfield, A., Grzegorczyk, M., Haury, A. - C., Holmes, B., Hothorn, T., Husmeier, D., Huynh-Thu, V. A., Irrthum, A., Karlebach, G., Lebre, S., De Leo, V., Madar, A., Mani, S., Mordelet, F., Ostrer, H., Ouyang, Z., Pandya, R., Petri, T., Pinna, A., Poultney, C. S., Rezny, S., Ruskin, H. J., Saeys, Y., Shamir, R., Sirbu, A., Song, M., Soranzo, N., Statnikov, A., Vega, N. M., Vera-Licona, P., Vert, J. - P., Visconti, A., Wang, H., Wehenkel, L., Windhager, L., Zhang, Y., and Zimmer, R., “Wisdom of crowds for robust gene network inference”, Nature Methods, vol. 9, pp. 796-804, 2012.
2011
A. Sirbu, Ruskin, H. J., and Crane, M., “Stages of Gene Regulatory Network Inference: the Evolutionary Algorithm Role”, in Evolutionary Algorithms, InTech, 2011.
2010
A. Sirbu, Ruskin, H. J., and Crane, M., “Comparison of evolutionary algorithms in gene regulatory network model inference.”, BMC Bioinformatics, vol. 11, p. 59, 2010.
A. Sirbu, Ruskin, H. J., and Crane, M., “Cross-platform microarray data normalisation for regulatory network inference.”, PLoS One, vol. 5, p. e13822, 2010.
A. Sirbu, Ruskin, H. J., and Crane, M., “Regulatory network modelling: Correlation for structure and parameter optimisation”, Proceedings of The IASTED Technology Conferences (International Conference on Computational Bioscience), Cambridge, Massachusetts, pp. 3473–3481, 2010.