Table of Contents

João André Carriço

Bio

Full Name: João André Nogueira Custódio Carriço
Degrees:

Current Position

Assistant Researcher
Molecular Microbiology and Infection Unit, Instituto de Medicina Molecular
Instituto de Microbiologia,Faculdade de Medicina de Lisboa, Universidade de Lisboa

Invited Researcher
Knowledge Discovery and Bioinformatics group (KDBIO)
Instituto de Engenharia de Sistemas e Computadores: Investigação e Desenvolvimento (INESC-ID)

Research Interests

Biology : Microbiology, Population Evolutionary Genetics, Molecular Epidemiology, Microbial Typing methods
Mathematics : Univariate/Multivariate Statistics for Data Analysis, Graph theory, Resampling methods
Informatics : Matlab, Perl, Data Mining, Databases: Postgresql, Web-Based Interfaces: PHP and HTML/CSS, XML schemas.

Websites

Personal homepage - My homepage

Comparing Partitions - a web site useful for finding correspondences between diferent partitions on a dataset, namely the application of different typing methods to a collection of bacterial isolates

ccrB typing - infering SCCmec type through the sequencing of ccrB gene.

goeBURST - a globally optimized implementation of the eBURST algorithm for the analysis of MLST data.

Contacts

Emails:

Twitter:

Publications

  1. Francisco AP, Bugalho M, Ramirez M, Carrico JA., Global Optimal eBURST analysis of Multilocus typing data using a graphic matroid approach,BMC Bioinformatics 2009, 10:152doi:10.1186/1471-2105-10-152 Abstract
  2. Duarte C. Oliveira,Mauro Santos,Catarina Milheiriço, João A. Carriço, Susana Vinga, Arlindo L. Oliveira and Hermínia de Lencastre, ccrB typing tool: an online resource for stapylococci ccrB sequence typing,J Antimicrob Chemother. 2008 Apr;61(4):959-60. Epub 2008 Jan 27, doi:10.1093/jac/dkn021
  3. Nuno A. Faria*, João A. Carriço*, Duarte C. Oliveira, Mário Ramirez and Hermínia de Lencastre, Analysis of typing methods for epidemiological surveillance of both methicillin-resistant and susceptible Staphylococcus aureus,J Clin Microbiol. 2008 Jan;46(1):136-144. PubMed Abstract
  4. Miragaia, M., João A. Carriço, J. C. Thomas, I. Couto, 5, M. C. Enright, and and Hermínia de Lencastre, Comparison of molecular typing methods for characterization of Staphylococcus epidermidis: a proposal for clone definition ,J Clin Microbiol. 2008 Jan;46(1):118-129. PubMed Abstract
  5. Raquel Sá-Leão*, Sónia Nunes1,*, António Brito-Avô, Carla R. Alves, João A. Carriço, Joana Saldanha, Jonas S. Almeida, Ilda Santos-Sanches, and Hermínia de Lencastre, High dynamics of transmission and colonization by Streptococcus pneumoniae and Haemophilus influenzae within a day-care center revealed in a longitudinal study ,J Clin Microbiol. 2008 Jan;46(1):225-234. PubMed Abstract
  6. Francisco R. Pinto, João A. Carriço, Mário Ramirez and Jonas S Almeida,Ranked Adjusted Rand: integrating distance and partition information in a measure of clustering agreement, BMC Bioinformatics 2007, 8:44 (07 Feb 2007) Full paper
  7. Almeida JS, C Chen, R Gorlitsky, R Stanislaus, M Aires-de-Sousa, P Eleutério, JA Carriço, A Maretzek, A Bohn, A Chang, F Zhang, R Mitra, GB Mills, X Wang, HF Deus (2006) Data integration gets 'Sloppy'. Nature Biotechnology (9):1070-1071.Pubmed Abstract
  8. Carriço, J.A.; C. Silva-Costa; J. Melo-Cristino; F. R. Pinto; H. de Lencastre; J.S.Almeida; M.Ramirez, Illustration of a Common Framework for Relating Multiple Typing Methods by Application to Macrolide-Resistant Streptococcus pyogenes, J Clin Microbiol. 2006 Jul;44(7):2524-32 Pubmed Abstract
  9. Mato R, Sanches IS, Simas C, Nunes S, Carrico JA, Sousa NG, Frazao N, Saldanha J, Brito-Avo A, Almeida JS, Lencastre HD.Natural History of Drug-Resistant Clones of Streptococcus pneumoniae Colonizing Healthy Children in Portugal.Microb Drug Resist. 2005 Winter;11(4):309-22. Pubmed Abstract
  10. Carriço, J.A. , F.R. Pinto, C. Simas, S. Nunes, N. G. Sousa, N. Frazão, H. de Lencastre, and J.S. Almeida. 2005. Assessment of band-based similarity coefficients for automatic Type/Subtype classification of microbial isolates analyzed by Pulsed-Field Gel Electrophoresis. J Clin Microbiol. 2005 Nov;43(11):5483-90. Pubmed Abstract
  11. Sousa N. G., R. Sá-Leão, M.I. Crisóstomo, C. Simas, S. Nunes, N. Frazão, J. Carriço, R. Mato, I. Santos-Sanches, and H. de Lencastre. 2005. Properties of novel international drug-resistant pneumococcal clones identified in day-care centers (DCCs) of Lisbon, Portugal. J Clin Microbiol. 2005 Sep;43(9):4696-703. Pubmed Abstract
  12. I. Serrano, J. Melo-Cristino, J. Carriço and M. Ramirez, Characterization of the genetic lineages responsible for pneumococcal invasive disease in Portugal,J Clin Microbiol. 2005 Apr;43(4):1706-15.Pubmed Abstract
  13. Nelson Frazão; António Brito-Avô; Carla Simas; Joana Saldanha; Rosario Mato; Sónia Nunes; Natacha Gonçalves Sousa; João Carriço; Jonas Almeida; Ilda Santos-Sanches; Hermínia de Lencastre, Effect of the 7-valent conjugate pneumococcal vaccine on carriage and drug resistance of Streptococcus pneumoniae in healthy children attending day-care centers in Lisbon Pediatr Infect Dis J. 2005 Mar;24(3):243-52.Pubmed Abstract
  14. Nunes S, R Sá-Leão, J Carriço, CR Alves, R Mato, A Brito Avô, J Saldanha, JS Almeida, I Santos Sanches, and H de Lencastre (2005) Trends in drug resistance, serotypes and molecular types of Streptococcus pneumoniae colonizing pre-school age children attending day care centers in Lisbon, Portugal – a summary of four years of annual surveillance.J. Clin. Microbiol. 2005;43 1285-1293   JCM abstract
  15. Sara Silva, Rodrigo Gouveia-Oliveira, Antonio Maretzek, Joao Carrico,Thorolfur Gudnason, Karl G Kristinsson, Karl Ekdahl, Antonio Brito-Avo, Alexander Tomasz, Ilda S Sanches, Herminia de Lencastre and Jonas S Almeida.Web-based epidemiological surveillance of antibiotic-resistant pneumococci in Day Care Centers BMC Medical Informatics and Decision Making 2003, 3:9  Abstract
  16. Maria Miragaia, Isabel Couto, Sandro F. F. Pereira, Karl G. Kristinsson, Henrik Westh, Jens O. Jarløv, João Carriço, Jonas Almeida, Ilda Santos Sanches and Hermínia de Lencastre.Molecular Characterization of Methicillin Resistant Staphylococcus epidermidis (MRSE) Clones: Evidence of Geographic Dissemination J Clin Microbiol 2002 Feb;40(2):430-8 Pubmed Abstract
  17. Almeida, Jonas S.; Carriço, João A. ;Maretzek, António; Fletcher, Madilyn; Noble, Peter; "Analysis of genomic sequences by Chaos Game Representation", Journal of Bioinformatics, Vol.17 n.5 2001 pages 429-437 Pubmed Abstract
  18. Santos Sanches, I., R. Mato, H. de Lencastre, A. Tomasz, CEM/NET collaborators: S. Nunes, C. R. Alves, M. Miragaia, J. Carriço,I. Couto, I. Bonfim, M. A. de Sousa, D. Oliveira, A. Gomes, M. Vaz, S.Fernandes, S. C. Verde, S. ávila, F. Antunes, R. Sá-Leão, J. Almeida,and International collaborators: O. Melter, M. Chung, M. C.Brandileone, E. Castañeda, I. Heitmann, M. Hortal, W. Hryniewicz, F.Jia, K. Kikuchi, K. G. Kristinsson, J. Liñares, A. Rossi, E. Z. Savov,J. Schindler, F. Solorzano-Santos, K. Totsuka, M. Venditti, P. Villari,H. Westh, J. S. Wu, and R. C. Zanella. 2000. Patterns of multidrug resistance among methicillin-resistant hospital isolates of coagulase-positive and coagulase-negative staphylococci collected in the international multicenter study RESIST in 1997 and 1998. Microb. Drug Resist. 6:199-211.Pubmed Abstract