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ORCIDRaquel Cardoso de Melo Minardi
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- affiliation: Federal University of Minas Gerais, Department of Computer Science
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Journal Articles
- 2023
[j20]Diego C. B. Mariano, Néli José da Fonseca Jr., Lucianna Helene Santos, Raquel Cardoso de Melo Minardi:
Editorial: Bioinformatics in the age of data science: algorithms, methods, and tools applied from Omics to structural data. Frontiers Bioinform. 3 (2023)- [j19]Pedro Martins, Diego C. B. Mariano, Frederico Chaves Carvalho, Luana Luiza Bastos, Lucas Moraes, Vivian Morais Paixão, Raquel Cardoso de Melo Minardi:
Propedia v2.3: A novel representation approach for the peptide-protein interaction database using graph-based structural signatures. Frontiers Bioinform. 3 (2023) - [j18]Elvira C. A. Horácio
, Lucas M. de Carvalho, Gustavo G. Pereira, Mayla C. Abrahim, Mônica P. Coelho, Deivid Almeida de Jesus, Glen J. Y. García, Raquel Cardoso de Melo Minardi, Sheila T. Nagamatsu:
Know-how of holding a Bioinformatics competition: Structure, model, overview, and perspectives. PLoS Comput. Biol. 19(12) (2023) - 2022
- [j17]Vinícius de Almeida Paiva, Isabela de Souza Gomes, Cleiton Rodrigues Monteiro, Murillo Ventura Mendonça, Pedro Magalhães Martins, Charles Abreu Santana, Valdete M. Gonçalves-Almeida, Sandro Carvalho Izidoro, Raquel Cardoso de Melo Minardi, Sabrina de Azevedo Silveira:
Protein structural bioinformatics: An overview. Comput. Biol. Medicine 147: 105695 (2022) - [j16]Alexandre V. Fassio, Laura Shub, Luca Ponzoni, Jessica McKinley, Matthew J. O'Meara, Rafaela Salgado Ferreira, Michael J. Keiser, Raquel Cardoso de Melo Minardi:
Prioritizing Virtual Screening with Interpretable Interaction Fingerprints. J. Chem. Inf. Model. 62(18): 4300-4318 (2022) - [j15]Charles Abreu Santana, Sandro C. Izidoro, Raquel Cardoso de Melo Minardi, Jonathan D. Tyzack, António J. M. Ribeiro, Douglas E. V. Pires, Janet M. Thornton, Sabrina de Azevedo Silveira:
GRaSP-web: a machine learning strategy to predict binding sites based on residue neighborhood graphs. Nucleic Acids Res. 50(W1): 392-397 (2022) - 2021
- [j14]Pedro M. Martins, Lucianna Helene Santos, Diego C. B. Mariano, Felippe C. Queiroz, Luana L. Bastos, Isabela de Souza Gomes, Pedro H. C. Fischer, Rafael E. O. Rocha, Sabrina de Azevedo Silveira, Leonardo H. F. de Lima, Mariana T. Q. de Magalhães, Maria G. A. Oliveira, Raquel Cardoso de Melo Minardi:
Propedia: a database for protein-peptide identification based on a hybrid clustering algorithm. BMC Bioinform. 22(1): 1 (2021) - [j13]Vitor Pimentel, Diego C. B. Mariano, Letícia Xavier Silva Cantão, Luana Luiza Bastos, Pedro H. C. Fischer, Leonardo Henrique Franca de Lima, Alexandre Victor Fassio, Raquel Cardoso de Melo Minardi:
VTR: A Web Tool for Identifying Analogous Contacts on Protein Structures and Their Complexes. Frontiers Bioinform. 1 (2021) - [j12]Alessandra Lima da Silva, Ana Paula de Abreu, Diego C. B. Mariano, Felipe Caixeta, Fenícia Brito Santos, Fernanda Stussi D. Lage, Gabriel Quintanilha-Peixoto, Heron O. Hilário, Joicymara S. Xavier, Lucio R. Queiroz, Nayara Evelin de Toledo, Raphael Tavares, Rodrigo Bentes Kato, Roselane Gonçalves dos Santos, Stellamaris Soares, Wanessa M. Goes, Wylerson Guimarães Nogueira, Thiago M. Batista, José Miguel Ortega, Vasco Ariston Azevedo De Carvalho, Glória Regina Franco, Raquel Cardoso de Melo Minardi, Aristóteles Góes-Neto:
From In-Person to the Online World: Insights Into Organizing Events in Bioinformatics. Frontiers Bioinform. 1 (2021) - 2020
- [j11]José Renato M. S. Barroso, Diego C. B. Mariano, Sandro R. Dias, Rafael E. O. Rocha, Lucianna Helene Santos, Ronaldo Alves Pinto Nagem, Raquel Cardoso de Melo Minardi:
Proteus: An algorithm for proposing stabilizing mutation pairs based on interactions observed in known protein 3D structures. BMC Bioinform. 21(1): 275 (2020) - [j10]Alexandre V. Fassio, Lucianna Helene Santos, Sabrina de Azevedo Silveira, Rafaela Salgado Ferreira, Raquel Cardoso de Melo Minardi:
nAPOLI: A Graph-Based Strategy to Detect and Visualize Conserved Protein-Ligand Interactions in Large-Scale. IEEE ACM Trans. Comput. Biol. Bioinform. 17(4): 1317-1328 (2020) - 2019
- [j9]Marcos Felipe Martins Silva, Pedro M. Martins, Diego C. B. Mariano, Lucianna Helene Santos, Isabela Pastorini, Naiara Pantuza, Cristiane Neri Nobre, Raquel Cardoso de Melo Minardi:
Proteingo: Motivation, user experience, and learning of molecular interactions in biological complexes. Entertain. Comput. 29: 31-42 (2019) - 2017
- [j8]Alexandre V. Fassio, Pedro M. Martins, Samuel da S. Guimarães, Sócrates S. A. Junior, Vagner S. Ribeiro, Raquel Cardoso de Melo Minardi, Sabrina de Azevedo Silveira:
Vermont: a multi-perspective visual interactive platform for mutational analysis. BMC Bioinform. 18(S-10): 51-63 (2017) - 2016
- [j7]Elisa Boari de Lima, Wagner Meira Jr., Raquel Cardoso de Melo Minardi:
Isofunctional Protein Subfamily Detection Using Data Integration and Spectral Clustering. PLoS Comput. Biol. 12(6) (2016) - 2015
- [j6]Sandro C. Izidoro, Raquel Cardoso de Melo Minardi, Gisele L. Pappa:
GASS: identifying enzyme active sites with genetic algorithms. Bioinform. 31(6): 864-870 (2015) - [j5]Wellisson R. S. Gonçalves, Valdete M. Gonçalves-Almeida, Aleksander L. Arruda, Wagner Meira Jr., Carlos Henrique da Silveira, Douglas E. V. Pires, Raquel Cardoso de Melo Minardi:
PDBest: a user-friendly platform for manipulating and enhancing protein structures. Bioinform. 31(17): 2894-2896 (2015) - 2013
- [j4]Douglas E. V. Pires, Raquel Cardoso de Melo Minardi, Carlos Henrique da Silveira, Frederico F. Campos, Wagner Meira Jr.:
aCSM: noise-free graph-based signatures to large-scale receptor-based ligand prediction. Bioinform. 29(7): 855-861 (2013) - 2012
- [j3]Valdete M. Gonçalves-Almeida, Douglas E. V. Pires, Raquel Cardoso de Melo Minardi, Carlos Henrique da Silveira, Wagner Meira Jr., Marcelo M. Santoro:
HydroPaCe: understanding and predicting cross-inhibition in serine proteases through hydrophobic patch centroids. Bioinform. 28(3): 342-349 (2012) - [j2]Douglas E. V. Pires, Luam C. Totti, Rubens E. A. Moreira, Elverton C. Fazzion, Osvaldo L. H. M. Fonseca, Wagner Meira Jr., Raquel Cardoso de Melo Minardi, Dorgival Olavo Guedes Neto:
FPCluster: An Efficient Out-of-core Clustering Strategy without a Similarity Metric. J. Inf. Data Manag. 3(2): 132-141 (2012) - 2010
- [j1]Raquel Cardoso de Melo Minardi, Karine Bastard, François Artiguenave:
Identification of subfamily-specific sites based on active sites modeling and clustering. Bioinform. 26(24): 3075-3082 (2010)
Conference and Workshop Papers
- 2023
- [c23]Frederico Chaves Carvalho, Diego C. B. Mariano, Marcos Bomfim, Giovana Fiorini, Luana L. Bastos, Ana Paula de Abreu, Vivian Paixão, Lucas Moraes dos Santos, Juliana Silva, Angie Puelles, Alessandra Lima da Silva, Raquel Cardoso de Melo Minardi:
Using Natural Language Processing for Context Identification in COVID-19 Literature. BSB 2023: 70-81 - [c22]Lucas Moraes dos Santos, Diego C. B. Mariano, Luana Luiza Bastos, Alessandra Gomes Cioletti, Raquel Cardoso de Melo Minardi:
Peptide-Protein Interface Classification Using Convolutional Neural Networks. BSB 2023: 112-122 - 2022
- [c21]Lucas Moraes dos Santos, Raquel Cardoso de Melo Minardi:
Identifying Large Scale Conformational Changes in Proteins Through Distance Maps and Convolutional Networks. BSB 2022: 56-67 - [c20]Vivian Morais Paixão, Raquel Cardoso de Melo Minardi:
Computational Methodology for Discovery of Potential Inhibitory Peptides. BSB 2022: 91-96 - 2020
- [c19]Diego C. B. Mariano, Mívian M. Ferreira, Bruno Luan de Sousa, Lucianna Helene Santos, Raquel Cardoso de Melo Minardi:
A Brief History of Bioinformatics Told by Data Visualization. BSB 2020: 235-246 - 2019
- [c18]João Arthur F. Gadelha Campelo, Cleiton Rodrigues Monteiro, Carlos Henrique da Silveira, Sabrina de Azevedo Silveira, Raquel Cardoso de Melo Minardi:
Protein Structural Signatures Revisited: Geometric Linearity of Main Chains are More Relevant to Classification Performance than Packing of Residues. IWBBIO (1) 2019: 391-402 - 2018
- [c17]Alexandre V. Fassio, Charles Abreu Santana, Fabio Ribeiro Cerqueira, Carlos Henrique da Silveira, João P. R. Romanelli, Raquel Cardoso de Melo Minardi, Sabrina de Azevedo Silveira:
An Interactive Strategy to Visualize Common Subgraphs in Protein-Ligand Interaction. IWBBIO (1) 2018: 383-394 - [c16]Pedro M. Martins, Vinícius D. Mayrink, Sabrina de Azevedo Silveira, Carlos Henrique da Silveira, Leonardo H. F. de Lima, Raquel Cardoso de Melo Minardi:
How to compute protein residue contacts more accurately? SAC 2018: 60-67 - 2017
- [c15]Susana Medina G., Alexandre Victor Fassio, Sabrina de Azevedo Silveira, Carlos Henrique da Silveira, Raquel Cardoso de Melo Minardi:
CALI: A Novel Visual Model for Frequent Pattern Mining in Protein-Ligand Graphs. BIBE 2017: 352-358 - [c14]Geraldo Ribeiro Franciscani, Rodrygo L. T. Santos, Michel Boaventura, Pedro Dalla Bernardina, Wagner Meira Jr., Raquel Cardoso de Melo Minardi:
Experimental Evaluation of Crowdsourcing on the Characterization of Data Visualization Techniques. BRACIS 2017: 432-437 - [c13]Sagar Sen, Manoel Horta Ribeiro, Raquel Cardoso de Melo Minardi, Wagner Meira Jr., Mari Nygård:
Portinari: A Data Exploration Tool to Personalize Cervical Cancer Screening. ICSE-SEIS 2017: 37-46 - 2016
- [c12]Charles Abreu Santana, Fabio Ribeiro Cerqueira, Carlos Henrique da Silveira, Alexandre V. Fassio, Raquel Cardoso de Melo Minardi, Sabrina de Azevedo Silveira:
GReMLIN: A Graph Mining Strategy to Infer Protein-Ligand Interaction Patterns. BIBE 2016: 28-35 - [c11]Matheus Lima Diniz Araújo, Iuro B. P. Nascimento, Gustavo Caetano Rafael, Raquel Cardoso de Melo Minardi, Fabrício Benevenuto:
Emotional Fingerprint from Authors in Classical Literature. WebMedia 2016: 263-270 - 2014
- [c10]Diego Barros, Raquel Oliveira Prates, Raquel Cardoso de Melo Minardi:
Uma investigação sobre as técnicas de visualização de informação quantitativas e qualitativas. IHC 2014: 397-400 - 2013
- [c9]Tiago Rodrigues, Prateek Dewan, Ponnurangam Kumaraguru, Raquel Cardoso de Melo Minardi, Virgílio A. F. Almeida:
uTrack: track yourself! monitoring information on online social media. WWW (Companion Volume) 2013: 273-276 - 2012
- [c8]Sabrina de Azevedo Silveira, Artur O. Rodrigues, Raquel Cardoso de Melo Minardi, Carlos Henrique da Silveira, Wagner Meira Jr.:
ADVISe: Visualizing the dynamics of enzyme annotations in UniProt/Swiss-Prot. BioVis 2012: 49-56 - [c7]Yussif Barcelos, Flavia Aburjaile, Laura R. Leite, Solange T. Oliveira, Raquel Cardoso de Melo Minardi:
Combining traditional and high-density visualizations in a dashboard to network health monitoring. IEEE VAST 2012: 295-296 - 2011
- [c6]Daniel Hasan Dalip, Raquel Lara dos Santos, Diogo Rennó Rocha de Oliveira, Valéria Freitas Amaral, Marcos André Gonçalves, Raquel Oliveira Prates, Raquel Cardoso de Melo Minardi, Jussara Marques de Almeida:
GreenWiki: a tool to support users' assessment of the quality of Wikipedia articles. JCDL 2011: 469-470 - [c5]Douglas E. V. Pires, Luam C. Totti, Rubens E. A. Moreira, Elverton C. Fazzion, Osvaldo L. H. M. Fonseca, Wagner Meira Jr., Raquel Cardoso de Melo Minardi, Dorgival O. Guedes:
FPCluster: Uma estratégia eficiente de agrupamento out-of-core sem medida de similaridade. SBBD (Short Papers) 2011: 97-104 - [c4]Elisa Boari de Lima, Raquel Cardoso de Melo Minardi, Wagner Meira Jr., Mohammed Javeed Zaki:
Data Integration via Constrained Clustering: An Application to Enzyme Clustering. SDM 2011: 83-94 - 2004
- [c3]Fernando A. Fernandes Jr., Rodrigo L. Carceroni, Carlos Eduardo R. Lopes, Wagner Meira Jr., Raquel C. de Melo, Arnaldo de Albuquerque Araújo, Marcelo M. Santoro, Carlos H. Silveira:
An Image-Matching Approach to Protein Similarity Analysis. SIBGRAPI 2004: 17-24 - [c2]Wagner Moro Aioffi, Geraldo Robson Mateus, Jussara M. Almeida, Raquel C. de Melo:
Dynamic Content Placement for Mobile Content Distribution Networks. WCW 2004: 19-33 - 2003
- [c1]Tiago Adriano de Knegt López de Prado, Wagner Meira Jr., Marcelo M. Santoro, Márcio de Carvalho, Rodrigo L. Carceroni, Carlos H. Silveira, Raquel C. de Melo, Fabiano A. Fonseca:
Using Structural Signatures for Identifying Globins: the Intra-Subunit Electrostatic Interactions. WOB 2003: 157-160
Editorship
- 2023
- [e2]Marcelo da Silva Reis, Raquel Cardoso de Melo Minardi:
Advances in Bioinformatics and Computational Biology - 16th Brazilian Symposium on Bioinformatics, BSB 2023, Curitiba, Brazil, June 13-16, 2023, Proceedings. Lecture Notes in Computer Science 13954, Springer 2023, ISBN 978-3-031-42714-5 [contents] - 2022
- [e1]Nicole M. Scherer, Raquel Cardoso de Melo Minardi:
Advances in Bioinformatics and Computational Biology - 15th Brazilian Symposium on Bioinformatics, BSB 2022, Buzios, Brazil, September 21-23, 2022, Proceedings. Lecture Notes in Computer Science 13523, Springer 2022, ISBN 978-3-031-21174-4 [contents]
Informal and Other Publications
- 2017
- [i1]Sagar Sen, Manoel Horta Ribeiro, Raquel Cardoso de Melo Minardi, Wagner Meira Jr., Mari Nygård:
Portinari: A Data Exploration Tool to Personalize Cervical Cancer Screening. CoRR abs/1704.00172 (2017)
Coauthor Index
aka: Carlos Henrique da Silveira
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