Fujita A, Patriota AG, Sato JR, Miyano S. The impact of measurement error in the identification of regulatory networks. BMC Bioinformatics. 10:412, 2009.
Fujita A, Sato JR, da Silva FHL, Galvao MC, Sogayar MC, Miyano S. Quality control and reproducibility in DNA microarray experiments. Genome Informatics. 23:21-31, 2009.
Fujita A, Sato JR, Demasi MAA, Yamaguchi R, Shimamura T, Ferreira CE, Sogayar MC, Miyano S. Inferring contagion in regulatory networks. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2009 (in press).
Shimamura T, Imoto S, Yamaguchi R, Fujita A, Nagasaki M, Miyano S. Recursive regularization for inferring gene networks from time-course gene expression profiles. BMC Systems Biology 3:41, 2009.
Fujita A, Sato JR, Demasi MAA, Sogayar MC, Ferreira CE, Miyano S. Comparing Pearson, Spearman and Hoeffding's D measure for gene expression association analysis. Journal of Bioinformatics and Computational Biology. 7(4):663-684, 2009.
Fujita A, Sato JR, Sogayar MC, Ferreira CE. Non parametric regression and canonical correlation analysis in tumor classification. Asia-Pacific Journal of Operational Research. 2009. (accepted).
Sato JR, Martin MGM, Fujita A, Mourão-Miranda J, Brammer MJ, Amaro Jr E. An fMRI normative database for connectivity networks using one-class support vector machines. Human Brain Mapping. 30:1068-1076, 2009.
Sato JR, Fujita A, Thomaz CE, Martin MG, Mourão-Miranda J, Brammer MJ, Amaro Jr E. Evaluating SVM and MLDA in the extraction of discriminant regions for mental state prediction. NeuroImage. 46:105-114, 2009.
Fujita A, Gomes LR, Sato JR, Yamaguchi R, Thomaz CE, Sogayar MC, Miyano S. Multivariate gene expression analysis reveals functional connectivity changes between normal/tumoral prostates. BMC Systems Biology 2:106, 2008.
Hatanaka Y, Nagasaki M, Yamaguchi R, Obayashi T, Numata K, Fujita A, Shimamura T, Tamada Y, Imoto S, Kinoshita K, Nakai K, Miyano S. A novel strategy to search conserved transcriptional factor binding sites among coexpressing genes in human. Genome Informatics 20:212-221, 2008.
Kojima K, Fujita A, Shimamura T, Imoto S, Miyano S. Estimation of nonlinear gene regulatory networks via L1 regularized NVAR from time series gene expression data. Genome Informatics 20:37-51, 2008.
Sato JR, Thomaz CE, Cardoso EF, Fujita A, Morais-Martin MG, Amaro Jr E. Hyperplane Navigation: a method to set individual scores in fMRI group datasets. NeuroImage. 42:1473-1480, 2008.
Fujita A, Sogayar MC, Ferreira CE. Análise de dados de expressão gênica: normalização de microarrays e modelagem de redes regulatórias. Annals of the Brazilian Society for Computer Science. 9-16, 2008.
Fujita A, Sato JR, Garay-Malpartida HM, Sogayar MC, Ferreira CE, Miyano S. Modeling nonlinear gene regulatory networks from time-series gene expression data. Journal of Bioinformatics and Computational Biology 6:961-79, 2008.
Fujita A, Sato JR, Festa F, Gomes LR, Oba-Shinjo SM, Marie SKN, Ferreira CE, Sogayar MC. Identification of COL6A1 as a differentially expressed gene in human astrocytomas. Genetics and Molecular Research 7:371-378, 2008.
Takehara EC, Carvalho LS, Fujita A. Correlacao entre a maturidade das vertebras cervicais e o surto de crescimento puberal em populacao brasileira. Revista Dental Press de Ortodontia e Ortopedia Facial, 2008 (in press).
Fujita A, Sato JR, Ferreira CE, Sogayar MC. GEDI: a user-friendly toolbox for analysis of large-scale gene expression data. BMC Bioinformatics 8:457, 2007.
Fujita A, Sato JR, Garay-Malpartida HM, Yamaguchi R, Miyano S, Sogayar MC, Ferreira CE. Modeling gene expression regulatory networks with the sparse vector autoregressive model. BMC Systems Biology 1:39, 2007.
Fujita A, Sato JR, Garay-Malpartida HM, Morettin PA, Sogayar MC, Ferreira CE. Time-varying modeling of gene expression regulatory networks using wavelet dynamic vector autoregressive method. Bioinformatics 23:1623-1630, 2007.
Sato JR, Fujita A, Amaro Jr E, Miranda JM, Morettin PA, Brammer MJ. DWT-CEM: An algorithm for scale-temporal clustering in fMRI. Biological Cybernetics 97:33-45, 2007.
Fujita A, Sato JR, Rodrigues LO, Ferreira MC, Sogayar MC. Evaluating different methods of microarray data normalization. BMC Bioinformatics 7:469, 2006.
Fujita A, Massirer KB, Durham AM, Ferreira CE, Sogayar MC. The GATO gene annotation tool for research laboratories. Brazilian Journal of Medical and Biological Research 38:1571-1574, 2005.