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Large scale protein function prediction tools. Author(s): MINARDI, R. C. de M.; ARTIGUENAVE, F.; NESHICH, G. In this project we intend to reinforce a recent collaboration established between two French and Brazilian bioinformatics laboratories for the development of a structural genomics approach to function... ... Repository: BDPA Publication year: 2009
Improving binding affinity prediction by using a rule-based model with physical-chemical and structural descriptors of the nano-environment for protein-ligand interactions. Author(s): BORRO, L. C.; SALIM, J. A.; MAZONI, I.; YANO, I.; JARDINE, J. G.; NESHICH, G. In order to improve binding affinity prediction, we developed a new scoring function, named STINGSF, derived from physical-chemical and structural features that describe the protein-ligand interaction... ... Repository: BDPA Publication year: 2015
Binding affinity prediction using a nonparametric regression model based on physicochemical and structural descriptors of the nano-environment for protein-ligand interactions. Author(s): BORRO, L.; YANO, I. H.; MAZONI, I.; NESHICH, G. We propose a new empirical scoring function for binding affinity prediction modeled based on physicochemical and structural descriptors that characterize the nano-environment that encompass both ligan... ... Repository: BDPA Publication year: 2016
Predicting enzyme class from protein structure using Bayesian classification. Author(s): BORRO, L. C.; OLIVEIRA, S. R. M.; YAMAGISHI, M. E. B.; MANCINI, A. L.; JARDINE, J. G.; MAZONI, I.; SANTOS, E. H. dos; HIGA, R. H.; KUSER, P. R.; NESHICH, G. ABSTRACT. Predicting enzyme class from protein structure parameters is a challenging problem in protein analysis. We developed a method to predict enzyme class that combines the strengths of statistic... ... Repository: BDPA Publication year: 2006
Basic aspects for choosing crops for recombinant production of therapeutic and industrial molecules. Author(s): CUNHA, N. B. da; LEITE, M. L.; COSTA, L. S. L.; CUNHA, V. A.; DIAS, S. C.; VIANNA, G. R.; RECH, E. L. Repository: BDPA Publication year: 2018
The Diamond STING Server. Author(s): NESHIC, G.; BORRO, L. C.; HIGA, R. H.; KUSER, P. R.; YAMAGISHI, M. E.; FRANCO, E. H.; KRAUCHENCO, J. N.; FILETO, R.; RIBEIRO, A. A.; BEZERRA, G. B.; VELLUDO, T. M.; JIMENEZ, T. S.; FURUKAWA, N.; TESHIMA, H.; KITAJIMA, K.; BAVA, A.; SARAI, A. TOGAWA, R. C.; MANCINI, A. L. Diamond STING is a new version of the STING suite of programs for a comprehensive analysis of a relationship between protein sequence, structure, function and stability. We have added a number of new... ... Repository: BDPA Publication year: 2005
Prediction of binding hot spot residues by using structural and evolutionary parameters. Author(s): HIGA, R. H.; TOZZI, C. L. In this work, we present a method for predicting hot spot residues by using a set of structural and evolutionary parameters. Unlike previous studies, we use a set of parameters which do not depend on... ... Repository: BDPA Publication year: 2009
Chemical composition of tempeh from soybean cultivars specially developed for human consumption. Author(s): BAVIA, A. C. F.; SILVA, C. E. da; FERREIRA, M. P.; LEITE, R. S.; LEITE, R. S.; MANDARINO, J. M. G.; CARRÃO-PANIZZI, M. C. Repository: BDPA Publication year: 2012
The Diamond Sting server. Author(s): NESHICH, G.; BORRO, L. C.; HIGA, R. H.; KUSER, P. R.; YAMAGISHI, M. E. B.; FRANCO, E. H.; KRAUCHENCO, J. N.; FILETO, R.; RIBEIRO, A. A.; BEZERRA, G. B. P.; VELLUDO, T. M.; JIMENEZ, T. S.; FURUKAWA, N.; TESHIMA, H.; KITAJIMA, K.; BAVA, A.; SARAI, A.; TOGAWA, R. C.; MANCINI, A. L. Diamond STING is a new version of the STING suite of programs for a comprehensive analysis of a relationship between protein sequence, structure, function and stability. We have added a number of new... ... Repository: BDPA Publication year: 2005
Plant Co-expression Annotation Tool: a tool to identify targets for proof of concept in Genetically Modified crop breeding pipelines. Author(s): VIANA, M. J. A.; ZERLOTINI NETO, A.; MUDADU, M. de A. The purpose of this work is to characterize PUFs to be used in GM crops pipelines using orthology, co-expression networks and other tools. To date, we have downloaded, analyzed, and processed genomic... ... Repository: BDPA Publication year: 2019

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