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ANDRADE-SILVA, DÉBORA ; ASHLINE, DAVID ; TRAN, THUY ; LOPES, ALINE S. ; CARDOSO, SILVIA REGINA TRAVAGLIA ; Reis, Marcelo S. ; ZELANIS, ANDRÉ ; SERRANO, SOLANGE M T ; REINHOLD, VERNON N. . Structures of N-Glycans of Bothrops venoms revealed as molecular signatures that contribute to venom phenotype in viperid snakes.. MOLECULAR & CELLULAR PROTEOMICS , v. 17, p. 1261-1284, 2018.
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VITORINO, FRANCISCA NATHALIA DE LUNA ; MONTONI, FABIO ; MORENO, JAQUELINE NEVES ; DE SOUZA, BRUNO FERREIRA ; LOPES, MARIANA DE CAMARGO ; CORDEIRO, BARBARA ; FONSECA, CECILIA SELLA ; GILMORE, JOSHUA M ; SARDIU, MIHAELA I ; REIS, MARCELO SILVA ; FLORENS, LAURENCE A ; WASHBURN, MICHAEL P ; ARMELIN, HUGO AGUIRRE ; DA CUNHA, JULIA PINHEIRO CHAGAS . FGF-2 Antiproliferative Stimulation Induces Proteomic Dynamic Changes and High Expression of fosB and junB in K-Ras-Driven Mouse Tumor Cells. PROTEOMICS , v. 18, p. 1800203, 2018.
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Reis, Marcelo S. ; ESTRELA, GUSTAVO ; FERREIRA, CARLOS EDUARDO ; BARRERA, JUNIOR . Optimal Boolean lattice-based algorithms for the U-curve optimization problem. INFORMATION SCIENCES , v. 471, p. 97-114, 2018.
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Dias, Matheus H. ; FONSECA, CECÍLIA S. ; ZEIDLER, JULIANNA D. ; Albuquerque, Layra L. ; DA SILVA, MARCELO S. ; LOPES-CARARO, EDUARDO ; Reis, Marcelo S. ; NOËL, VINCENT ; DOS SANTOS, EDMILSON O. ; PRIOR, IAN A. ; Armelin, Hugo A. . Fibroblast Growth Factor 2 lethally sensitizes cancer cells to stress-targeted therapeutic inhibitors. Molecular Oncology , v. 13, p. 290-306, 2018.
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DE JESUS, TERESA CRISTINA LEANDRO ; CALDERANO, SIMONE GUEDES ; VITORINO, FRANCISCA NATHALIA DE LUNA ; LLANOS, RICARDO PARIONA ; LOPES, MARIANA DE CAMARGO ; DE ARAÚJO, CHRISTIANE BEZERRA ; THIEMANN, OTAVIO HENRIQUE ; REIS, MARCELO DA SILVA ; ELIAS, MARIA CAROLINA ; DA CUNHA, JULIA PINHEIRO CHAGAS . Quantitative proteomic analysis of replicative and non-replicative forms reveals important insights into chromatin biology of Trypanosoma cruzi . Molecular & Cellular Proteomics , v. 16, p. mcp.M116.061200, 2017.
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ATASHPAZ-GARGARI, E. ; REIS, M. S. ; BRAGA NETO, U. M. ; BARRERA, J. ; DOUGHERTY, E. R. . A Fast Branch-and-Bound Algorithm for U-Curve Feature Selection. PATTERN RECOGNITION , p. 172-188, 2017.
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Reis, Marcelo S. ; ESTRELA, G. ; FERREIRA, C. E. ; BARRERA, J. . featsel: A framework for benchmarking of feature selection algorithms and cost functions. SoftwareX , v. 6, p. 193-197, 2017.
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BARRERA ; FONSECA, ANDRÉ ; GUBITOSO, MARCO ; Reis, Marcelo ; JOSÉ DE SOUZA, SANDRO ; BARRERA, JUNIOR . A New Approach for Identification of Cancer-related Pathways using Protein Networks and Genomic Data. Cancer Informatics , v. 5, p. 139-149, 2016.
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SILVA, D. A. ; ZELANIS, A. ; KITANO, E. ; JUNQUEIRA-DE-AZEVEDO, I. L. M. ; REIS, M. S. ; LOPES, A. S. ; SERRANO, S. M. T. . Proteomic and glycoproteomic profilings reveal that posttranslational modifications of toxins contribute to venom phenotype in snakes.. Journal of Proteome Research (Print) , v. 15, p. 2658-2675, 2016.
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PARIONA-LLANOS, RICARDO ; PAVANI, RAPHAEL SOUZA ; Reis, Marcelo ; NOËL, VINCENT ; SILBER, ARIEL MARIANO ; ARMELIN, HUGO AGUIRRE ; CANO, MARIA ISABEL NOGUEIRA ; ELIAS, MARIA CAROLINA . Glyceraldehyde 3-Phosphate Dehydrogenase-Telomere Association Correlates with Redox Status in Trypanosoma cruzi. Plos One , v. 10, p. e0120896, 2015.
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Nyvall Collén, Pi ; Collén, Jonas ; Silva Reis, Marcelo ; Pedersén, Marianne ; Setubal, João C. ; Varani, Alessandro M. ; Colepicolo, Pio ; Oliveira, Mariana C. . Analysis of expressed sequence tags from the agarophyte Gracilaria tenuistipitata (Rhodophyta). Journal of Applied Phycology , v. 1, p. 1-7, 2011.
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MACIEL, SCHEILA C ; SILVA, RICARDO F ; Reis, Marcelo S. ; JADÃO, ADRIANA S. ; ROSA, DANIEL D ; GIAMPAN, J S ; KITAJIMA, E. W. ; REZENDE, J. A. M. ; CAMARGO, LUIS EDUARDO ARANHA . Characterization of a new potyvirus causing mosaic and flower variegation in Catharanthus roseus in Brazil. Scientia Agricola (USP. Impresso) , v. 68, p. 687-690, 2011.
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Barbosa, Julio C. ; Barreto, Sarah S. ; Inoue-Nagata, Alice K. ; Reis, Marcelo S. ; Firmino, Ana Carolina ; Bergamin Filho, Armando ; Rezende, Jorge Alberto Marques . Natural infection of Nicandra physaloides by Tomato severe rugose virus in Brazil. Journal of General Plant Pathology , v. 75, p. 440-443, 2009.
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Cristofani-Yaly, Mariângela ; Berger, Irving J. ; Targon, Maria Luisa P.N. ; Takita, Marco A. ; Dorta, Sílvia de O. ; Freitas-Astúa, Juliana ; Souza, Alessandra A. de ; Boscariol-Camargo, Raquel L. ; Reis, Marcelo S. ; Machado, Marcos A. . Differential expression of genes identified from Poncirus trifoliata tissue inoculated with CTV through EST analysis and in silico hybridization. Genetics and Molecular Biology (Impresso) , v. 30, p. 972-979, 2007.
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Souza, Alessandra A. de ; Takita, Marco A. ; Coletta-Filho, Helvécio D. ; Targon, Maria Luisa P.N. ; Carlos, Eduardo F. ; Locali-Fabris, Eliane C. ; Amaral, Alexandre M. ; Freitas-Astúa, Juliana ; Silva-Pinhati, Ana Carla O. ; Boscariol-Camargo, Raquel L. ; Berger, Irving J. ; Rodrigues, Carolina M. ; Reis, Marcelo S. ; Machado, Marcos A. . Analysis of expressed sequence tags from Citrus sinensis L. Osbeck infected with Xylella fastidiosa. Genetics and Molecular Biology (Impresso) , v. 30, p. 957-964, 2007.
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Boscariol-Camargo, Raquel L. ; Berger, Irving J. ; Souza, Alessandra A. ; Amaral, Alexandre M. do ; Carlos, Eduardo F. ; Freitas-Astúa, Juliana ; Takita, Marco A. ; Targon, Maria Luisa P.N. ; Medina, Camilo L. ; Reis, Marcelo S. ; Machado, Marcos A. . In silico analysis of ESTs from roots of Rangpur lime (Citrus limonia Osbeck) under water stress. Genetics and Molecular Biology (Impresso) , v. 30, p. 906-916, 2007.
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Berger, Irving J. ; Freitas-Astúa, Juliana ; Reis, Marcelo S. ; Targon, Maria Luísa P.N. ; Machado, Marcos A. . In silico prediction of gene expression patterns in Citrus flavedo. Genetics and Molecular Biology (Impresso) , v. 30, p. 752-760, 2007.
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Reis, Marcelo S. ; Takita, Marco A. ; Palmieri, Darío A. ; Machado, Marcos A. . Bioinfomatics for the Citrus EST Project (CitEST). Genetics and Molecular Biology (Impresso) , v. 30, p. 1024-1029, 2007.
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SETUBAL, J. C. ; Reis, M. S. ; MATSUNAGA, J. ; Haake, D. A. . Lipoprotein computational prediction in spirochaetal genomes. Microbiology (Reading) , Inglaterra, v. 152, n.152, p. 113-121, 2006.
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NASCIMENTO, A. L. T. O. KO, A. I. MARTINS, E. A. L. MONTEIRO-VITORELLO, C. B. HO, P. L. Haake, D. A. VERJOVSKI-ALMEIDA, S. HARTSKEERL, R. A. MARQUES, M. V. OLIVEIRA, M. C. MENCK, C. F. M. LEITE, L. C. C. CARRER, H. COUTINHO, L. L. DEGRAVE, W. M. DELLAGOSTIN, O. A. EL-DORRY, H. FERRO, E. S. FERRO, M. I. T. FURLAN, L. R. GAMBERINI, M. GIGLIOTI, E. A. GOES-NETO, A. GOLDMAN, G. H. GOLDMAN, M. H. S. , et al. HARAKAVA, R. Jeronimo, S. M. B Junqueira-de-Azevedo, I. L. M. Kimura, E. T. Kuramae, E. E. Lemos, E. G. M. Lemos, M. V. F. Marino, C. L. Nunes, L. R. de Oliveira, R. C. Pereira, G. G. REIS, M. S. Schriefer, A. Siqueira, W. J. Sommer, P. ; Comparative Genomics of Two Leptospira interrogans Serovars Reveals Novel Insights into Physiology and Pathogenesis. Journal of Bacteriology (Print) , v. 186, n.7, p. 2164-2172, 2004.
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Hagopian, Jonathan C. ; Reis, Marcelo ; Kitajima, Jo?o P. ; Bhattacharya, Debashish ; Oliveira, Mariana C. . Comparative Analysis of the Complete Plastid Genome Sequence of the Red Alga Gracilaria tenuistipitata var. liui Provides Insights into the Evolution of Rhodoplasts and Their Relationship to Other Plastids. Journal of Molecular Evolution , v. 59, n.4, p. 464-477, 2004.
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Reis, Marcelo S. ; NOËL, VINCENT ; Dias, Matheus H. ; Albuquerque, Layra L. ; Guimarães, Amanda S. ; Wu, Lulu ; BARRERA, JUNIOR ; Armelin, Hugo A. . An Interdisciplinary Approach for Designing Kinetic Models of the Ras/MAPK Signaling Pathway. In: Paul Huang; Aik Choon Tan. (Org.). Methods in Molecular Biology. 1ed.: Springer New York, 2017, v. 1636, p. 455-474.
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REIS, M. S. ; BARRERA, J. . Solving Problems in Mathematical Morphology through Reductions to the U-curve Problem. In: 11th International Symposium on Mathematical Morphology, 2013, Uppsala. Mathematical Morphology and its Applications to Image and Signal Processing Proceedings ISMM 2013, Uppsala, Sweden, LNCS, 2013. v. 7883. p. 49-60.
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REIS, M. S. ; DIAS, M. H. S. ; NOEL, V. ; FONSECA, C. S. ; ALBUQUERQUE, L. L. ; Nakano, F. ; BARRERA, J. ; ARMELIN, H. A. . Mathematical modeling of the K-Ras switch in the K-Ras-driven mouse Y1 adrenocortical tumor cells provides insights into molecular mechanisms of FGF2-induced cell cycle arrest. In: 17th International Conference on Systems Biology (ICSB 2016), 2016, Barcelona. Proceedings of the 17th International Conference on Systems Biology, 2016.
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WU, L. ; REIS, M. S. ; NOEL, V. ; Armelin, H.A. ; BARRERA, J. . A method to modify molecular signaling networks through examination of interactome databases. In: X-Meeting 2015 - 11th International Conference of th AB3C + Brazilian Symposium of Bioinformatics, 2015, São Paulo. Proceedings of the X-Meeting 2015 & BSB, 2015. p. Poster SB07.
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NOEL, V. ; REIS, M. S. ; DIAS, M. H. S. ; ALBUQUERQUE, L. L. ; PARIONA-LLANOS, R. ; PAVANI, R. ; SILBER, A. ; CANO, M. I. N. ; ELIAS, M. C. ; Nakano, F. ; BARRERA, J. ; ARMELIN, H. A. . Design and analysis of dynamical models of biochemical reaction networks. In: Symmetry and Dynamics in Biology: From experimental analysis to mathematical modeling, 2015, São Paulo. Proceedings of SDB 2015, 2015.
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REIS, M. S. ; NISHIYAMA-JR, M. Y. ; SILVA, D. F. ; JUNQUEIRA-DE-AZEVEDO, I. L. M. ; DA-CUNHA, J. P. C. ; BARRERA, J. ; IWAI, L. K. ; SERRANO, S. M. T. ; ARMELIN, H. A. . CeTICSdb: a platform for interdisciplinary research that allows quantitative and qualitative -omics analyses and mathematical modeling of signaling networks. In: 18th Annual International Conference on Research in Computational Molecular Biology, 2014, Pittsburgh. RECOMB 2014 Book of Abstracts, 2014. p. 128-128.
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REIS, M. S. ; DIAS, M. H. S. ; Nakano, F. ; BARRERA, J. ; ARMELIN, H. A. . Mathematical modeling of Ras/MAPK signaling network kinetics provides insights into mechanisms of FGF2-induced cell cycle arrest in the K-Ras-driven mouse Y1 adrenocortical tumor cells. In: 18th Annual International Conference on Research in Computational Molecular Biology, 2014, Pittsburgh. RECOMB 2014 Book of Abstracts. p. 126-126.
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REIS, M. S. ; DIAS, M. H. S. ; Nakano, F. ; NOEL, V. ; BARRERA, J. ; Armelin, H.A. . Modeling the kinetics of Ras/MAPK and PI3K/AKT signaling pathways in the K-Ras-driven mouse Y1 adrenocortical tumor cells: novel insights into the mechanisms of FGF2-driven cell cycle arrest. In: Challenges and Solutions in Cancer Research and Treatment (CSC 2014), 2014, Mangaratiba, RJ. CSC 2014, 2014. p. SIG-09.
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Reis, M. S. ; DIAS, M. H. S. ; ALBUQUERQUE, L. L. ; NOEL, V. ; Nakano, F. ; BARRERA, J. ; Armelin, H.A. . Mathematical modeling of the Ras/MAPK and PI3K/Akt signaling networks in the K-Ras-driven mouse Y1 adrenocortical tumor cells. In: XLIII Reunião Anual da SBBq, 2014, Foz do Iguaçu. Resumos da XLIII Reunião Anual da SBBq, 2014. p. P-C35.
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Reis, Marcelo S. ; NOEL, V. ; DIAS, M. H. S. ; ALBUQUERQUE, L. L. ; Nakano, F. ; BARRERA, J. ; Armelin, H.A. . Mathematical modeling of the crosstalk between Ras/MAPK and PI3K/Akt signaling pathways in the K-Ras-driven mouse Y1 adrenocortical tumor cells provides insights into the mechanisms of FGF2-driven cell cycle arrest. In: The 15th International Conference on Systems Biology (ICSB 2014), 2014, Melbourne. Proceedings of the ICSB 2014, 2014.
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REIS, M. S. ; FERREIRA, C. E. ; BARRERA, J. . Estimation of Probabilistic Gene Networks using the UCS feature selection algorithm. In: X-Meeting, 2010, Ouro Preto. Proceedings of the 6th International Conference of the Brazilian Association for Bioinformatics and Computational Biology, 2010. p. SBN15.
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REIS, M. S. ; BARRERA, J. . Assessment of prediction methods for the estimation of Probabilistic Gene Networks. In: X-Meeting, 2009, Angra dos Reis. Proceedings of the 5th International Conference of the Brazilian Association for Bioinformatics and Computational Biology, 2009. p. P68.
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SCHEICHER, R.B. ; REIS, M. S. ; TAKITA, M. A. ; MACHADO, M. A. . Integration between the Citrus unigene editor and a digital Northern tool, using XML. In: X-Meeting 2007, 2007, São Paulo. Proceedings of the 3rd Conference of Brazilian Association for Bioinformatics and Computational Biology. São Paulo: AB3C, 2007. p. XP36.
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REIS, M. S. ; TAKITA, M. A. ; SOUZA, A. A. ; BERGER, I. J. ; FREITAS-ASTUA, J. ; MACHADO, M. A. . A Digital Northern tool for assessment of Citrus differentially expressed genes. In: 14th Annual International Conference On Intelligent Systems For Molecular Biology, 2006, Fortaleza. 14th Annual International Conference On Intelligent Systems For Molecular Biology, H91, 2006.
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GREN, ERIC C.K. ; KITANO, EDUARDO S. ; ANDRADE-SILVA, DEBORA ; IWAI, LEO KEI ; Reis, Marcelo S. ; MENEZES, MILENE C. ; SERRANO, SOLANGE M.T. . Comparative analysis of the high molecular mass subproteomes of eight Bothrops snake venoms. Comparative Biochemistry and Physiology D-Genomics & Proteomics , 2019.
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REIS, M. S. ; FERREIRA, C. E. ; BARRERA, J. . The U-curve optimization problem: improvements on the original algorithm and time complexity analysis 2014 (Boletim Técnico).
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AMARAL, A. M. ; REIS, M. S. ; SILVA, F. R. . O programa BLAST: guia prático de utilização.
Brasília:
Embrapa, 2007 (Boletim Técnico).