Academic position:
Assistant Professor
Joining date:
12-10-2011
Role in IT: Researcher Scientific Area: Networks and Multimedia
Group: Pattern and Image Analysis – Lx
Degrees
- PhD, Instituto Superior Técnico, 01-01-2011 - MSc, Instituto Superior Técnico, 01-01-2004 - Licenciatura, Instituto Superior Técnico, 01-01-1998
- Instituto Superior Técnico, Assistant Professor, 01-01-2011
- Instituto Superior Técnico, Teaching Assistant, 01-01-2006
Academic Activities
Supervision of theses
MSc
- Learning from imbalanced data, MSc, Cecília Nunes, 12-2012, Instituto Superior Técnico
Publications
Book Chapters [4]
- Carvalho, A. M.; A.M.L. Oliveira; M.-F. Sagot Sagot; "Efficient learning of Bayesian network classifiers: An extension to the TAN classifier" - Chapter in Australian Joint Conference on Artificial Intelligence, volume 4830 of Lecture Notes in Artificial Intelligence, pages 16-25, M. A. Orgun and J. Thornton, Springer, Gold Coast, Australia,
2007.
- N. Pisanti; Carvalho, A. M.; L. Marsan; M.-F. Sagot Sagot; "RISOTTO: Fast extraction of motifs with mismatches" - Chapter in Latin American Theoretical Informatics Symposium, volume 3887 of Lecture Notes in Computer Science, pages 757-768, J. R. Correa, A. Hevia and M. Kiwi, Springer, Valdivia, Chile,
2006.
- Carvalho, A. M.; Ana T. Freitas Freitas; A.M.L. Oliveira; M.-F. Sagot Sagot; "A highly scalable algorithm for the extraction of cis-regulatory regions" - Chapter in Asia Pacific Bioinformatics Conference, volume 1 of Advances in Bioinformatics and Computational Biology, pages 273-282, Yi-Ping Phoebe Chen and Limsoon Wong, , Singapore,
2005.
- Carvalho, A. M.; Ana T. Freitas Freitas; A.M.L. Oliveira; M.-F. Sagot Sagot; "Efficient extraction of structured motifs using box-links" - Chapter in Symposium on String Processing and Information Retrieval, volume 3246 of Lecture Notes in Computer Science, pages 267-268, A. Apostolico and M. Melucci, Springer, Padova, Italy,
2004.
Papers in Journals [5]
- S. Vinga; Carvalho, A. M.; A. P. Francisco; L. M. S. Russo; J. S. Almeida; "Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis", Algorithms for Molecular Biology, Vol. 7, No. 10, pp. 1 - 12, May, 2012.
| BibTex
- Carvalho, A. M.; T. Roos; A.M.L. Oliveira; P. Myllymäki; "Discriminative learning of Bayesian networks via factorized conditional log-likelihood", Journal of Machine Learning Research, Vol. 12, No. Jul, pp. 2181 - 2210, July, 2011.
| BibTex
- Carvalho, A. M.; A.M.L. Oliveira; "GRISOTTO: A greedy approach to improve combinatorial algorithms for motif discovery with prior knowledge", Algorithms for Molecular Biology, Vol. 6, No. 13, pp. 0 - 0, April, 2011.
| BibTex
- P. T. Monteiro; N. D. Mendes; M. C. Teixeira; S. Orey; S. Tenreiro; N. Mira; A. P. Francisco; Carvalho, A. M.; A. B. Lourenço; I. Sá-Correia; "YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae", Nucleic Acids Research, Vol. 36, No. Database-Issue, pp. 132 - 136, October, 2008.
| BibTex
- Carvalho, A. M.; Ana T. Freitas Freitas; A.M.L. Oliveira; M.-F. Sagot Sagot; "An Efficient Algorithm for the Identification of Structured Motifs in DNA Promoter Sequences", IEEE/ACM Trans. on Computational Biology and Bioinformatics, Vol. 3, No. 2, pp. 126 - 140, April, 2006.
| BibTex
Papers in Conference Proceedings [2]
- Carvalho, A. M.; A.M.L. Oliveira; "Learning Bayesian networks consistent with the optimal branching", Proc International Conf. on Machine Learning and Applications - ICMLA, Ohio, United States, Vol. , pp. 369 - 374, December, 2007.
| BibTex
- Carvalho, A. M.; Ana T. Freitas Freitas; A.M.L. Oliveira; M.-F. Sagot Sagot; "A parallel algorithm for the extraction of structured motifs", Proc ACM Symp. on Appl. Computing, Nicosia, Cyprus, Vol. , pp. 147 - 153, March, 2004.
| BibTex
Theses
- A. M. Carvalho; "Motif representation and discovery", Instituto Superior Técnico, July, 2011.
- A. M. Carvalho; "Efficient algorithms for structured motif extraction in DNA sequences", Instituto Superior Técnico, June, 2004.
- A. M. Carvalho; "Category theory in COQ", Instituto Superior Técnico, May, 1998.
Other Scientific Achievements
Awards
- Carvalho, A. M.; A.M.L. Oliveira;
"Highly accessed article", for the paper GRISOTTO: A greedy approach to improve combinatorial algorithms for motif discovery with prior knowledge, by BioMed Central, 01-11-2011.
- P. Monteiro; N. D. Mendes; M. C. Teixeira; S. Orey; S. Tenreiro; N. Mira; H. Pais; A. P. Francisco; Carvalho, A. M.; A. B. Lourenço;
"Sartorius award", Inovation in Microbiology/Biotecnology, for the work that lead to the article YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae, at Micro-Biotec 2007, 01-01-2007.
- Carvalho, A. M.;
"Diploma Thesis award", PRODEP program 5/5.2/207/011/PRODEP/98, 01-02-1998.
Other Contributions
Conference Committees
- European Conf. on Machine Learning - ECML, Technical Programme Committee, Alexandra Sofia Martins de Carvalho, 2012.
Refereeing
Journals
-
Bioinformatics
2012, 1 review(s);
-
Journal of Machine Learning Research
2012, 1 review(s);
