Molecular dynamics simulations of oligonucleotides in solution: Visualisation of intrinsic curvature. - Osmar Norberto de Souza; Julia M. Goodfellow (J. Comput. Aided Mol. Des., 1994)

Scheduling complex computer simulations on heterogeneous non-dedicated machines: a case study in structural bioinformatics. - Marco Aurélio Stelmar Netto; Ardala Breda; Osmar Norberto de Souza (CCGRID, 2005)

A framework for result handling in bioinformatics: an application to computer assisted drug design. - Andrei Oliveira da Silva; Osmar Norberto de Souza (SAC, 2005)

VIZ - A Graphical Open-Source Architecture for Use in Structural Bioinformatics. - Ricardo M. Czekster; Osmar Norberto de Souza (BSB, 2005)

Structure Prediction and Docking Studies of Chorismate Synthase from Mycobacterium Tuberculosis. - Cláudia Lemelle Fernandes; Diógenes Santiago Santos; Luiz Augusto Basso; Osmar Norberto de Souza (BSB, 2005)

SimVIZ - A Desktop Virtual Environment for Visualization and Analysis of Protein Multiple Simulation Trajectories. - Ricardo M. Czekster; Osmar Norberto de Souza (ICCSA (1), 2006)

Automating Molecular Docking with Explicit Receptor Flexibility Using Scientific Workflows. - Karina S. Machado; Evelyn K. Schroeder; Duncan D. Ruiz; Osmar Norberto de Souza (BSB, 2007)

A structural model for chorismate synthase from Mycobacterium tuberculosis in complex with coenzyme and substrate. - Cláudia Lemelle Fernandes; Ardala Breda; Diógenes Santiago Santos; Luiz Augusto Basso; Osmar Norberto de Souza (Comput. Biol. Medicine, 2007)

CReF: a central-residue-fragment-based method for predicting approximate 3-D polypeptides structures. - Márcio Dorn; Osmar Norberto de Souza (SAC, 2008)

A Hybrid Method for the Protein Structure Prediction Problem. - Márcio Dorn; Ardala Breda; Osmar Norberto de Souza (BSB, 2008)

Extracting Information from Flexible Receptor-Flexible Ligand Docking Experiments. - Karina S. Machado; Evelyn K. Schroeder; Duncan D. Ruiz; Ana Wink; Osmar Norberto de Souza (BSB, 2008)

FReDD: Supporting Mining Strategies through a Flexible-Receptor Docking Database. - Ana T. Winck; Karina S. Machado; Osmar Norberto de Souza; Duncan D. Ruiz (BSB, 2009)

Discretization of Flexible-Receptor Docking Data. - Karina S. Machado; Ana T. Winck; Duncan D. Ruiz; Osmar Norberto de Souza (BSB, 2010)

A3N: An artificial neural network n-gram-based method to approximate 3-D polypeptides structure prediction. - Márcio Dorn; Osmar Norberto de Souza (Expert Syst. Appl., 2010)

Mining the Protein Data Bank with CReF to predict approximate 3-D structures of polypeptides. - Márcio Dorn; Osmar Norberto de Souza (Int. J. Data Min. Bioinform., 2010)

A Conceptual Many Tasks Computing Architecture to Execute Molecular Docking Simulations of a Fully-Flexible Receptor Model. - Renata De Paris; Fábio A. Frantz; Osmar Norberto de Souza; Duncan D. Ruiz (BSB, 2011)

Mining flexible-receptor molecular docking data. - Karina S. Machado; Ana T. Winck; Duncan D. Ruiz; Osmar Norberto de Souza (WIREs Data Mining Knowl. Discov., 2011)

A Comparative Analysis of Public Ligand Databases Based on Molecular Descriptors. - Ana T. Winck; Christian Vahl Quevedo; Karina S. Machado; Osmar Norberto de Souza; Duncan D. Ruiz (BSB, 2012)

Automatic design of decision-tree induction algorithms tailored to flexible-receptor docking data. - Rodrigo C. Barros; Ana T. Winck; Karina S. Machado; Márcio P. Basgalupp; André Carlos Ponce de Leon Ferreira de Carvalho; Duncan D. Ruiz; Osmar Norberto de Souza (BMC Bioinform., 2012)

An expert protein loop refinement protocol by molecular dynamics simulations with restraints. - Karina C. M. Dall'Agno; Osmar Norberto de Souza (Expert Syst. Appl., 2013)

An interval-based algorithm to represent conformational states of experimentally determined polypeptide templates and fast prediction of approximated 3D protein structures. - Márcio Dorn; Osmar Norberto de Souza (Int. J. Bioinform. Res. Appl., 2013)

Discovery of New Inhibitors of Mycobacterium tuberculosis InhA Enzyme Using Virtual Screening and a 3D-Pharmacophore-Based Approach. - Ivani Pauli; Ricardo N. dos Santos; Diana C. Rostirolla; Leonardo K. Martinelli; Rodrigo G. Ducati; Luís Fernando S. M. Timmers; Luiz Augusto Basso; Diógenes Santiago Santos; Rafael V. C. Guido; Adriano D. Andricopulo; Osmar Norberto de Souza (J. Chem. Inf. Model., 2013)

MASTERS: A General Sequence-based MultiAgent System for Protein TERtiary Structure Prediction. - Thiago Lipinski-Paes; Osmar Norberto de Souza (CS2Bio, 2014)

A strategic solution to optimize molecular docking simulations using Fully-Flexible Receptor models. - Christian Vahl Quevedo; Renata De Paris; Duncan D. Ruiz; Osmar Norberto de Souza (Expert Syst. Appl., 2014)

A Cloud-Based Workflow Approach for Optimizing Molecular Docking Simulations of Fully-Flexible Receptor Models and Multiple Ligands. - Renata De Paris; Duncan Dubugras A. Ruiz; Osmar Norberto de Souza (CloudCom, 2015)

P-SaMI: a data-flow pattern to perform massively-parallel molecular docking experiments using a fully-flexible receptor model. - Patricia Hübler; Duncan Dubugras A. Ruiz; João Eduardo Ferreira; Osmar Norberto de Souza (SAC, 2015)

Clustering Molecular Dynamics Trajectories for Optimizing Docking Experiments. - Renata De Paris; Christian Vahl Quevedo; Duncan Dubugras A. Ruiz; Osmar Norberto de Souza; Rodrigo C. Barros (Comput. Intell. Neurosci., 2015)

A Multiagent Ab Initio Protein Structure Prediction Tool for Novices and Experts. - Thiago Lipinski-Paes; Michele dos Santos da Silva Tanus; José Fernando Ruggiero Bachega; Osmar Norberto de Souza (ISBRA, 2016)

Decision-Making for Interactive Systems: A Case Study for Teaching and Learning in Bioinformatics. - Vanessa Stangherlin Machado; Walter Ritzel Paixão-Cortes; Osmar Norberto de Souza; Márcia de Borba Campos (HCI (26), 2017)

A Panorama on Selection and Use of Bioinformatics Tools in the Brazilian University Context. - Vanessa Stangherlin Machado Paixão-Cortes; Walter Ritzel Paixão-Cortes; Márcia de Borba Campos; Osmar Norberto de Souza (HCI (8), 2018)

A selective method for optimizing ensemble docking-based experiments on an InhA Fully-Flexible receptor model. - Renata De Paris; Christian Vahl Quevedo; Duncan D. Ruiz; Furia Gargano; Osmar Norberto de Souza (BMC Bioinform., 2018)

Usability as the Key Factor to the Design of a Web Server for the CReF Protein Structure Predictor: The wCReF. - Vanessa Stangherlin Machado Paixão-Cortes; Michele dos Santos da Silva Tanus; Walter Ritzel Paixão-Cortes; Osmar Norberto de Souza; Márcia de Borba Campos; Milene Selbach Silveira (Inf., 2018)

Development and Usability Evaluation of a Prototype Conversational Interface for Biological Information Retrieval via Bioinformatics. - Walter Ritzel Paixão-Cortes; Vanessa Stangherlin Machado Paixão-Cortes; Cristiane Ellwanger; Osmar Norberto de Souza (HCI (4), 2019)