Inferring gene regulatory networks from classified microarray data: Initial results. - J. Stuart Aitken; Thanyaluk Jirapech-Umpai; Rónán Daly (BMC Bioinform., 2005)

Speeding up the learning of equivalence classes of bayesian network structures. - Rónán Daly; Qiang Shen; J. Stuart Aitken (Artificial Intelligence and Soft Computing, 2006)

Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana. - Rónán Daly; Kieron D. Edwards; John S. O'Neill; J. Stuart Aitken; Andrew J. Millar; Mark A. Girolami (PRIB, 2009)

Learning Bayesian Network Equivalence Classes with Ant Colony Optimization. - Rónán Daly; Qiang Shen 001 (J. Artif. Intell. Res., 2009)

Learning Bayesian networks: approaches and issues. - Rónán Daly; Qiang Shen 001; J. Stuart Aitken (Knowl. Eng. Rev., 2011)

Cell Proliferation Tracking Using Graphene Sensor Arrays. - Rónán Daly; Shishir Kumar; Gyongyi Lukacs; Kangho Lee; Anne Weidlich; Martin Hegner; Georg S. Duesberg (J. Sensors, 2012)

MetAssign: probabilistic annotation of metabolites from LC-MS data using a Bayesian clustering approach. - Rónán Daly; Simon Rogers; Joe Wandy; Andris Jankevics; Karl E. V. Burgess; Rainer Breitling (Bioinform., 2014)

Incorporating peak grouping information for alignment of multiple liquid chromatography-mass spectrometry datasets. - Joe Wandy; Rónán Daly; Rainer Breitling; Simon Rogers (Bioinform., 2015)

PiMP my metabolome: an integrated, web-based tool for LC-MS metabolomics data. - Yoann Gloaguen; Fraser R. Morton; Rónán Daly; Ross Gurden; Simon Rogers; Joe Wandy; David Wilson; Michael P. Barrett; Karl E. V. Burgess (Bioinform., 2017)

MetaboCraft: building a Minecraft plugin for metabolomics. - Anargyros Megalios; Rónán Daly; Karl E. V. Burgess (Bioinform., 2018)

ShinyKGode: an interactive application for ODE parameter inference using gradient matching. - Joe Wandy; Mu Niu; Diana Giurghita; Rónán Daly; Simon Rogers; Dirk Husmeier (Bioinform., 2018)

Ms2lda.org: web-based topic modelling for substructure discovery in mass spectrometry. - Joe Wandy; Yunfeng Zhu; Justin J. J. van der Hooft; Rónán Daly; Michael P. Barrett; Simon Rogers (Bioinform., 2018)

GraphOmics: an interactive platform to explore and integrate multi-omics data. - Joe Wandy; Rónán Daly (BMC Bioinform., 2021)

R package for statistical inference in dynamical systems using kernel based gradient matching: KGode. - Mu Niu; Joe Wandy; Rónán Daly; Simon Rogers; Dirk Husmeier (Comput. Stat., 2021)

Ranking microbial metabolomic and genomic links in the NPLinker framework using complementary scoring functions. - Grímur Hjörleifsson Eldjárn; Andrew Ramsay; Justin J. J. van der Hooft; Katherine R. Duncan; Sylvia Soldatou; Juho Rousu; Rónán Daly; Joe Wandy; Simon Rogers (PLoS Comput. Biol., 2021)

ViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomics. - Joe Wandy; Vinny Davies; Ross McBride; Stefan Weidt; Simon Rogers; Rónán Daly (J. Open Source Softw., 2022)