MUSA: a parameter free algorithm for the identification of biologically significant motifs. - Nuno D. Mendes; Ana C. Casimiro; Pedro M. Santos 003; Isabel Sá-Correia; Arlindo L. Oliveira; Ana T. Freitas (Bioinform., 2006)

YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae. - Pedro T. Monteiro 001; Nuno D. Mendes; Miguel C. Teixeira; Sofia d'Orey; Sandra Tenreiro; Nuno P. Mira; Hélio Pais; Alexandre P. Francisco; Alexandra M. Carvalho; Artur B. Lourenço; Isabel Sá-Correia; Arlindo L. Oliveira; et al. (Nucleic Acids Res., 2008)

Efficient algorithms for the identification of miRNA motifs in DNA sequences. - Nuno D. Mendes (2011)

Navigating the unexplored seascape of pre-miRNA candidates in single-genome approaches. - Nuno D. Mendes; Steffen Heyne; Ana T. Freitas; Marie-France Sagot; Rolf Backofen (Bioinform., 2012)

Composition and abstraction of logical regulatory modules: application to multicellular systems. - Nuno D. Mendes; Frédéric Lang; Yves-Stan Le Cornec; Radu Mateescu 001; Grégory Batt; Claudine Chaouiya (Bioinform., 2013)

Quantification of reachable attractors in asynchronous discrete dynamics. - Nuno D. Mendes; Pedro T. Monteiro 001; Jorge Carneiro; Elisabeth Remy; Claudine Chaouiya (CoRR, 2014)