Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data. - Robert C. McLeay; Timothy L. Bailey (BMC Bioinform., 2010)

Tissue-specific prediction of directly regulated genes. - Robert C. McLeay; Chris J. Leat; Timothy L. Bailey (Bioinform., 2011)

Epigenetic priors for identifying active transcription factor binding sites. - Gabriel Cuéllar-Partida; Fabian A. Buske; Robert C. McLeay; Tom Whitington; William Stafford Noble; Timothy L. Bailey (Bioinform., 2012)

Genome-wide in silico prediction of gene expression. - Robert C. McLeay; Tom Lesluyes; Gabriel Cuéllar-Partida; Timothy L. Bailey (Bioinform., 2012)