A. Ferreira's publications

  • Articles
  • Proceedings
  • Book chapters
  • Thesis
  • Articles

    • Lages N.F., Cordeiro C., Sousa Silva M., Ponces-Freire A., Ferreira A.E.N. (2012) Optimization of Time-Course Experiments for Kinetic Model Discrimination, PLoS ONE, 7(3), e32749
    • Ferreira A.E.N. (2012) Alta exatidão em espectrometria de massa: da composição elementar à anotação em metabolómica, Química, 124, 49-52
    • Barata, L., Sousa Silva, M., Schuldt, L., Ferreira AEN, Gomes RA, Tomás AM, Weiss MS, Ponces Freire A, Cordeiro C (2011) Enlightening the molecular basis of trypanothione specificity in trypanosomatids: mutagenesis of Leishmania infantum glyoxalase II, Exp. Parasitol., 129(4), 402-8.
    • Oliveira BL, Raposinho PD, Mendes F, Santos IC, Santos IS, Ferreira A, Cordeiro C, Freire AP, Correia JDC (2011) Targeting nitric oxide synthase with 99mTc/Re tricarbonyl complexes containing pendant guanidino or isothiourea moieties, J Organometal. Chem., 696-5, 1057-1065
    • Barata, L., Sousa Silva, M., Schuldt, L., Tomás, A.M., Ferreira, A.E.N., Weiss, M.S., Ponces Freire, A., Cordeiro, C. (2010) Cloning, Expression, Purification, Crystallization and Preliminary X-ray Diffraction Analysis of Glyoxalase I from Leishmania infantum, Acta Crystallographica Section F, 66, 571-4.
    • Faria D, Ferreira AE, Falcão AO (2009) Enzyme classification with peptide programs: a comparative study. BMC Bioinformatics, 24, 231
    • Oliveira B.L., Correia J.D., Raposinho P.D., Santos I., Ferreira A., Cordeiro C., Freire A.P. (2009) Re and (99m)Tc organometallic complexes containing pendant l-arginine derivatives as potential probes of inducible nitric oxide synthase. Dalton Trans. 1, 152-62.
    • Barata, L., Silva, MS, da Costa, G, Schuldt, L, Ferreira, AE, Tomas, AM, Weiss, MS, Freire, AP, Cordeiro, C. (2009) Leishmania infantum aldose reductase: expression with molecular chaperones, purification and kinetic studies American Journal of Tropical Medicine and Hygiene, 81-5(suppl 1), 139 (abstract 490)
    • Gomes, R.A., Oliveira, L.M.A., Silva, M.C.C., Ascenso, C., Quintas, A., Costa, G., Coelho, A.V., Sousa Silva, M., Ferreira, A.E.N., Ponces Freire, A., Cordeiro, C. (2008) Protein glycation in vivo: Functional and structural effects on yeast enolase. Biochemical Journal, 416-3, 317-2
    • Sousa Silva, M., Barata, L., Ferreira, A.E.N., Romão, S., Tomás, A.M., Ponces Freire, A., Cordeiro, C. (2008). Trypanothione specificity and the evolution of trypanosomatids: catalysis and molecular properties of Leishmania infantum glyoxalase II. Biochemistry, 47, 195-204.
    • Vicente Miranda, H. , Ferreira, A.E.N., Quintas, A., Cordeiro, C., Ponces Freire, A. (2008) Measuring Intracellular Enzyme Concentrations. Biochemical and Molecular Biology Education, 36, 135-138.
    • Gomes, R., Vicente Miranda, H., Sousa Silva, M., Graça, G., Coelho, A. V., Ferreira, A.E.N., Cordeiro, C., Ponces Freire, A. (2008). Protein glycation and methylglyoxal metabolism in yeast: finding peptide needles in protein haystacks. FEMS Yeast Research, 8, 174-181.
    • Vicente Miranda, H. , Ferreira, A.E.N., Cordeiro, C., Ponces Freire, A. (2006) Kinetic assay for measurement of enzyme concentration in situ. Analytical Biochemistry, 354, 148-150.
    • Trincao J, Sousa Silva M, Barata L, Bonifacio C, Carvalho S, Tomas AM, Ferreira A E N, Cordeiro C, Ponces Freire A, Romao MJ. (2006) Purification, crystallization and preliminary X-ray diffraction analysis of the glyoxalase II from Leishmania infantum. Acta Crystallograph Sect F Struct Biol Cryst Commun., 62, 805-807
    • Gomes, R. J., Vicente Miranda, H. , Sousa Silva, M., Graça, G., Coelho, A. V., Ferreira, A.E.N., Cordeiro, C., Ponces Freire, A. (2006) Yeast protein glycation in vivo by methylglyoxal: Molecular modification of glycolytic enzymes and heat shock proteins. FEBS Journal, 273, 5273-5287
    • M. Sousa Silva, A. E. N. Ferreira, A. Tomás, C. Cordeiro, A. Ponces Freire (2005) Quantitative Assessement of the Glyoxalase Pathway in Leishmania infantum as a Therapeutic Target by Modelling and Computer Simulation, FEBS Journal, 272, 2388-2398
    • Gomes, R. A., Sousa Silva, M., Vicente Miranda, H., Ferreira, A.E.N., Cordeiro, C.A.A., Ponces Freire, A.P. (2005) Protein glycation in Saccharomyces cerevisiae - Argpyrimidine formation and methylglyoxal catbolism. FEBS J., 272, 4521-4531
    • Abecasis, J., Ferreira, A.E.N., Ponces Freire, A. (2004) Metabolic modelling using evolutionary algorithms. Eur J Biochem, 271 (Suppl. 1), 88
    • Ponces Freire, A., Ferreira, A., Gomes, R., Cordeiro, C. (2003) Anti-glycation defences in yeast, Biochemical Society Transactions, 31-6, 1409-1412
    • Ferreira, A.E.N., Ponces Freire, A.M.J., Voit, E.O. (2003) A quantitative model of the generation of Ne-(carboxymethyl)lysine in the Maillard reaction between collagen and glucose, Biochemical Journal, 376, 109-121.
    • Voit, E.O., Ferreira, A.E.N. (1998) Buffering in Models of Integrated Biochemical Systems, Journal Of Theoretical Biology, 191, 429-438.

    Proceedings

    • Falcão A.O., Faria D., Ferreira A. (2008) Peptide Programs: Applying Fragment Programs to Protein Classification. DTMBIO\'08 : Proceedings of the 2008 ACM 2nd CIKM workshop on Data and Text Mining Methods in Bioinformatics New York, NY, USA, October, in press. ACM.
    • Pesquita C., Faria D., Bastos H., Ferreira A.E., Falcão A.O., Couto F.M. (2008) Metrics for GO based protein semantic similarity: a systematic evaluation. BMC Bioinformatics. (2008). 9, Suppl 5:S4.
    • Lages, N.F., Sousa Silva, M., Ferreira, A.E.N., Tomás, A.M., Cordeiro, C., Ponces Freire, A. (2007) Potential role of the glyoxalase pathway as a drug target in L. infantum. BMC Systems Biology 1 (suppl 1): S8.
    • Abecasis, J.P.R., Ferreira, A.E.N., Vicente Miranda, H., Gomes, R., Sousa Silva, M., Cordeiro, C., Ponces Freire, A. (2005) Parameter estimation in multi-enzyme systems using evolutionary algorithms. BKDB2005 - Bioinformatics: Knowledge Discovery in Biology. Faculdade de Ciências de Lisboa Ed. pp 48-52
    • Ferreira, A.E.N., Voit, E.O. (1996) Buffering Components in Integrative Systems Models. In: Methodologies for the Conception, Design, and Application of Intelligent Systems , Proceedings de IIZUKA'96, ed. T.Yamakawa & G.Matsumoto, 175-178, World Scientific, Singapore.

    Book chapters

    • "Introdução aos Enzimas", in "Bioquímica - Organização Molecular da Vida" (2008) Quintas, A., Ponces Freire, A. Halpern M.J. Eds., Lidel: Lisboa.
    • "Cinética Enzimática", in "Bioquímica - Organização Molecular da Vida" (2008) Quintas, A., Ponces Freire, A. Halpern M.J. Eds., Lidel: Lisboa.
    • "Regulação da Actividade Enzimática", in "Bioquímica - Organização Molecular da Vida" (2008) Quintas, A., Ponces Freire, A. Halpern M.J. Eds., Lidel: Lisboa.
    • PLAS: Power-Law Analysis and Simulation, Copyright © 1995-2011 by Ferreira, A.E.N. Computer Software included in book: Computational Analysis of Biochemical Systems, Voit, E. O. (2000), Cambridge University Press, New York.

    Thesis

    • Ferreira, A.E.N. (2002) Modelação cinética da reacção de Maillard In Vivo, PhD thesis. Universidade de Lisboa.
    • Ferreira, A.E.N. (1993) Uma revisão da análise matemática de sistemas bioquímicos: formalismos basedos em funções potência. Review for PAPCC. Universidade de Lisboa.
    • Ferreira, A.E.N. (1993) Integração numérica de modelos cinéticos: Simulação da Dinâmica das oscilações de cálcio em células de mamíferos. Project for PAPCAA. Universidade de Lisboa.