Care was taken to form groups balanced in terms of the students' educational background. This encouraged students to help one another.

All students

Nuno Mendes

This PhD program has been for me a unique opportunity to broaden my appreciation of biology and the many wonderful problems it has on offer waiting to be unraveled (2005-12-01)

Resumé

Birth: Lisboa, Portugal

Present: Postdoctoral fellow at the Instituto Gulbenkian de Ciência, at Claudine Chaouiya's group

2006-2011: PhD student at the Bamboo Bioinformatics group with Marie France Sagot
2005-2006: First year student of the PhD Program in Computational Biology, Instituto Gulbenkian de Ciência, Oeiras, Portugal.
2005: Master Degree, Information Systems and Computer Engineering. Instituto Superior Técnico, Universidade Técnica de Lisboa, Portugal.
2004: Five-Year Degree in Information Systems and Computer Engineering.Instituto Superior Técnico, Universidade Técnica de Lisboa, Portugal.
Interests: Regulation of gene expression, Genome structure and genome evolution, Non-coding RNAs, Structural biology, Motif discovery

PhD Project

Supervisor: Marie-France-Sagot

Laboratory: Bamboo Bioinformatics

University: Universidade Técnica de Lisboa, Portugal & Université Claude Bernard, Lyon

Thesis

Efficient algorithms for the identification of miRNA motifs in DNA sequences. Universidade Técnica de Lisboa, Portugal & Université Claude Bernard, Lyon, France (2011) pp.110. [pdf]

Publications

Nuno D. Mendes, Ana T. Freitas, Ana T. Vasconcelos, Marie-France Sagot. Combination of measures distinguishes pre-miRNAs from other stem-loops in the genome of the newly sequenced Anopheles darlingi. BMC Genomics (2010) 11, .

Nuno D. Mendes, Ana T. Freitas, Marie-France Sagot. Current tools for the identification of miRNA genes and their targets. Nucleic Acids Research (2009) 37 (8), 2419-2433.

Pedro T. Monteiro, 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, Ana T. Freitas.. YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae. Nucleic Acids Research (2007) 36, D132–D136.

Nuno D. Mendes, Ana C. Casimiro, Pedro M. Santos, Isabel Sá-Correia, Arlindo L. Oliveira, Ana T. Freitas . MUSA: a parameter free algorithm for the identification of biologically significant motifs. Bioinformatics (2006) 22 (24), 2996-3002.