Ulisses Braga-Neto's Publications


Journal Papers in Reverse Chronological Order

  1. U.M. Braga-Neto, A. Zollanvari, and E.R. Dougherty, "Cross-validation under separate sampling: strong bias and how to correct it," Bioinformatics, 2014 Aug 13. (Epub ahead of print.)

  2. B. Afsari, U.M. Braga-Neto, and D. Geman, " Rank discriminants for predicting phenotypes from RNA expression," Annals of Applied Statistics, Vol. 8, No. 3, Sep 2014, pp. 1469-1491.

  3. T.T. Vu, C. Sima, U.M. Braga-Neto, and E.R. Dougherty, "Unbiased Bootstrap Error Estimation for Linear Discriminant Analysis," EURASIP Journal on Bioinformatics and Systems Biology, 2014, 2014:15

  4. E. Atashpaz-Gargari, U.M. Braga-Neto, and E.R. Dougherty, "Modeling and Systematic Analysis of Biomarker Validation using Selected Reaction Monitoring." In press, EURASIP Journal on Bioinformatics and Systems Biology, 2014.

  5. T. Chen and U.M. Braga-Neto, "Statistical Detection of Boolean Regulatory Relationships," IEEE/ACM Transactions on Computational Biology and Bioinformatics, Vol. 10, No. 5, Sep-Oct 2014, pp. 1310-1321. doi: 10.1109/TCBB.2013.118. [IEEE Explore] [Preprint]

  6. T. Chen and U.M. Braga-Neto, "Maximum-Likelihood Estimation of the Discrete Coefficient of Determination in Stochastic Boolean Systems," IEEE Transactions on Signal Processing, Vol. 61, No. 15, August 1 2013, pp. 3880-3894. [IEEE Explore] [Preprint]

  7. A.F. Pastor, L. Rodrigues, J.W.D. Neto, E.J.M. Nascimento, C.E. Calzavara-Silva, A.L.V. Gomes, A.M. da Silva, M.T. Cordeiro, U.M. Braga-Neto, S. Crovella, L.H.V.G. Gil, B. Acioli-Santos, E.T.A. Marques Jr., "Complement factor H gene (CFH) polymorphisms C-257T, G257A and haplotypes are associated with protection against Severe Dengue Phenotype, possible related with high CFH expression," Human Immunology, Vol. 74, No. 8, Sep 2013, pp. 1225-1230, doi:10.1016/j.humimm.2013.05.005. Epub 2013 Jun 6. [PubMed]

  8. L.X.E. de Alencar, U.M. Braga-Neto, E.J.M. Nascimento, M.T. Cordeiro, A.M. Silva, C.A.A. de Britto, M.P.C. da Silva, L.H.V.G. Gil, S. Montenegro, E.T.A. Marques, "HLA-B*44 is Associated with Dengue Severity Caused by DENV-3 in a Brazilian Population," Journal of Tropical Medicine. Volume 2013, Article ID 648475, 11 pages, 2013. doi:10.1155/2013/648475 [Hindawi Open Access]

  9. D.C. Martins, Jr., E.A. de Oliveira, U.M. Braga-Neto, R.F. Hashimoto and R.M. Cesar, Jr., "Signal Propagation in Bayesian Networks and its Relationship with Intrinsically Multivariate Predictive Variables," Information Sciences, Vol. 225, Mar 2013, pp. 18-34, doi:10.1016/j.ins.2012.10.027.

  10. A.B. Melo, E.J.M. Nascimento, U.M. Braga-Neto, R. Dhalia, A.M. Silva, M. Oelke, J.P. Schneck, J. Sidney, A. Sette, S. Montenegro, E.T.A. Marques, "T-Cell Memory Responses Elicited by Yellow Fever Vaccine are Targeted to Overlapping Epitopes Containing Multiple HLA-I and -II Binding Motifs," PLoS Neglected Tropical Diseases, Vol. 7, No. 1, Jan 2013, p. e1938, doi:10.1371/journal.pntd.0001938. [PubMed]

  11. E. Atashpaz-Gargari, C. Sima, U.M. Braga-Neto and E.R. Dougherty, Relationship Between the Accuracy of Classifier Error Estimation and Complexity of the Decision Boundary," Pattern Recognition, Volume 46, Issue 5, May 2013, Pages 1315-1322, doi:10.1016/j.patcog.2012.10.020.

  12. Y. Sun, U.M. Braga-Neto and E.R. Dougherty, "A systematic model of the LC-MS proteomics pipeline," BMC Genomics, GENSIPS'2011 Special Issue, Vol. 13, Suppl. 6, October 2012, p. S2, doi:10.1186/1471-2164-13-S6-S2 [BMC Open Access] [PubMed]

  13. C.C. Allen, B.R.C. Alves, X. Li, L.O. Tedeschi, H. Zhou, J.A. Paschal, P. Riggs, U.M. Braga-Neto, D.H. Keisler, G.L. Williams and M. Amstalden, "Gene expression in the arcuate nucleus of heifers is affected by controlled intake of high- and low-concentrate diets," Journal of Animal Sciences, Vol. 90, No. 7, July 2012, pp. 2222-2232. [PubMed]

  14. Y. Sun, J. Zhang, U.M. Braga-Neto and E.R. Dougherty, "BPDA2d -- A 2D global optimization based Bayesian peptide detection algorithm for LC-MS," Bioinformatics, Vol. 28, No. 4, February 2012, pp. 564-572. [PubMed]

  15. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "Exact representation of the second-order moments for resubstitution and leave-one-out error estimation for linear discriminant analysis in the univariate heteroskedastic Gaussian model," Pattern Recognition, Vol. 45, No. 2, February 2012, pp. 908-917. [Preprint]

  16. C. Sima, T.T. Vu, U.M. Braga-Neto and E.R. Dougherty, "High-Dimensional Bolstered Error Estimation," Bioinformatics, Vol. 27, No. 21, September 2011, pp. 3056-3064. [PubMed]

  17. Y. Wang, N. Ghaffari, C.D. Johnson, U.M. Braga-Neto, H. Wang, R. Chen and H. Zhou, "Evaluation of coverage and depth of transcriptome by RNA-Seq in chickens," BMC Bioinformatics, MCBIOS'2011 Special Issue, Vol. 12, Suppl. 10, October 2011, p. S5, doi:10.1186/1471-2105-12-S10-S5 [BMC Open Access]

  18. A.B. Melo, M. Silva, C. Magalhaes, L.H.V.G. Gil, E.M.F. Carvalho, G.R. Bertani, U.M. Braga-Neto, E.T.A. Marques and M.T. Cordeiro, "Description of a Prospective 17DD Yellow Fever Vaccinee Cohort in Recife, Brazil," The American Journal of Tropical Medicine and Hygiene, Vol. 85, No. 4, Ocotber 2011, pp. 739-747. [PubMed]

  19. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "Analytic Study of Performance of Error Estimators for Linear Discriminant Analysis," IEEE Transactions on Signal Processing, Vol. 59, No. 9, September 2011, pp. 4238-4255. [IEEE Explore] [Preprint]

  20. E.R. Dougherty, A. Zollanvari and U.M. Braga-Neto, "The Illusion of Distribution-Free Small-Sample Classification in Genomics," Current Genomics, Vol. 12, No. 5, August 2011, pp. 333-341. [Preprint]

  21. T. Chen and U.M. Braga-Neto, "Exact Performance of CoD Estimators in Discrete Prediction," EURASIP Journal on Advances in Signal Processing (JASP), Special Issue on Genomic Signal Processing, Volume 2010, Article ID 487893, 13 pages, 2010. doi:10.1155/2010/487893 [Hindawi Open Access]

  22. T.T. Vu and U.M. Braga-Neto, "Small-Sample Error Estimation for Bagged Classification Rules," EURASIP Journal on Advances in Signal Processing (JASP), Special Issue on Genomic Signal Processing. Volume 2010, Article ID 548906, 12 pages, 2010. doi:10.1155/2010/548906 [Hindawi Open Access]

  23. Y. Sun, J. Zhang, U.M. Braga-Neto and E.R. Dougherty, "BPDA - a Bayesian peptide detection algorithm for mass spectrometry," BMC Bioinformatics, Vol. 11, September 2010, p. 490, doi:10.1186/1471-2105-11-490 [PubMed] [BMC Open Access]

  24. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "Joint Sampling Distribution Between Actual and Estimated Classification Errors for Linear Discriminant Analysis," IEEE Transactions on Information Theory, Vol. 56, No. 2, February 2010, pp. 784-804. [IEEE Explore] [Preprint]

  25. U.M. Braga-Neto and E.R. Dougherty, "Exact Correlation between Actual and Estimated Errors in Discrete Classification," Pattern Recogition Letters, Vol. 31, No. 5, April 2010, pp. 407-412. [Preprint]

  26. E.R. Dougherty, C. Sima, J. Hua, B. Hanczar and U.M. Braga-Neto, "Performance of Error Estimators for Classification," Current Bioinformatics, Vol. 5, No. 1, March 2010, pp. 53-67. [Preprint]

  27. Y. Sun, U.M. Braga-Neto and E.R. Dougherty, "Impact of Missing Value Imputation on Classification for DNA Microarray Gene Expression Data - A Model-Based Study," EURASIP Journal on Bioinformatics and Systems Biology, Volume 2009, Article ID 504069, November 2009, 17 pages, doi:10.1155/2009/504069 [PubMed] [Hindawi Open Access]

  28. E.J.M. Nascimento, U.M. Braga-Neto, C. Calvazara, A.L. Gomes, F. Abath, B. Acioli, C.A.A. Brito, M.T. Cordeiro, A.M. Silva, C. Magalhaes, R. Andrade, L.H.V.G. Gil and E.T.A. Marques, Jr., "Gene Expression Profiling During Acute Stage of Dengue Infection," PLoS ONE, Vol. 4, No. 11, November 2009, p. e7892, doi:10.1371/journal.pone.0007892 [PubMed] [PLoS Open Access]

  29. U.M. Braga-Neto, "Classification and Error Estimation for Discrete Data," Current Genomics, Vol. 10, No. 7, November 2009, pp. 446-462. [PubMed] [Preprint]

  30. A. Zollanvari, M.J. Cunningham, U.M. Braga-Neto and E.R. Dougherty, "Analysis and Modeling of Time-Course Gene-Expression Profiles from Nanomaterial-Exposed Primary Human Epidermal Keratinocytes," BMC Bioinformatics, MCBIOS'2009 Special Issue, Vol. 10, Suppl. 11, October 2009, p. S10. [PubMed] [BMC Open Access]

  31. E.J.M. Nascimento, A.M. Silva, M.T. Cordeiro, C.A.A. Brito, L.H.V.G. Gil, Ulisses Braga-Neto and E.T.A. Marques, Jr., "Alternative Complement Pathway Deregulation Is Correlated with Dengue Severity," PLoS ONE, Vol. 4, No. 8, August 2009, p. e6782. [PubMed] [PLoS Open Access]

  32. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "On the Sampling Distribution of Resubstitution and Leave-One-Out Error Estimators for Linear Classifiers," Pattern Recognition, Vol. 42, No. 11, November 2009, pp. 2705-2723. [Preprint]

  33. T.T. Vu and U.M. Braga-Neto, "Is Bagging Effective in the Classification of Small-Sample Genomic and Proteomic Data?" EURASIP Journal on Bioinformatics and Systems Biology, Special Issue on Applications of Signal Processing Techniques to Bioinformatics, Genomics, and Proteomics, Volume 2009, Article ID 158368, 10 pages, 2009. doi:10.1155/2009/158368 [PubMed] [Hindawi Open Access]

  34. M.T. Cordeiro, U.M. Braga-Neto, R.M.R. Nogueira and E.T.A. Marques, Jr., "Reliable classifier to differentiate primary and secondary acute dengue infection based on IgG ELISA," PLoS ONE, Vol. 4, No. 4, April 2009, p. e4945. [PubMed] [PLoS Open Access]

  35. D.C. Martins, Jr., U.M. Braga-Neto, R.F. Hashimoto, M.L. Bittner and E.R. Dougherty, "Intrinsically Multivariate Predictive Genes," IEEE Journal of Selected Topics in Signal Processing, Vol. 2, No. 3, June 2008, pp. 424-439. [IEEE Explore] [Preprint]

  36. B. Acioli-Santos, L. Segat, R. Dhalia, C.A.A. Brito, U.M. Braga-Neto, E.T.A. Marques and S. Crovella, "MBL2 Gene Polymorphisms Protect Against Development of Thrombocytopenia Associated with Severe Dengue Phenotype," Human Immunology, Vol. 69, No. 2, February 2008, pp. 122-128. [PubMed]

  37. U.M. Braga-Neto, "Fads and Fallacies in the Name of Small-Sample Microarray Classification," IEEE Signal Processing Magazine, Special Issue on Signal Processing Methods in Genomics and Proteomics, Vol. 24, No. 1, January 2007, pp. 91-99. [IEEE Explore] [Preprint]

  38. Q. Xu, J. Hua, U.M. Braga-Neto, Z. Xiong, E. Suh and E.R. Dougherty, "Confidence Intervals for the True Classification Error Conditioned on the Estimated Error," Technology in Cancer Research and Treatment, Vol. 5, No. 6, December 2006, pp. 579-590. [PubMed]

  39. U.M. Braga-Neto and E.A.T. Marques, Jr., "From Functional Genomics to Functional Immunomics: New Challenges, Old Problems, Big Rewards," PLoS Computational Biology, Vol. 2, No. 7, July 2006, p. e81 [PubMed] [PLoS Open Access]

  40. E. Dougherty and U.M. Braga-Neto, "Epistemology of Computational Biology: Mathematical Models and Experimental Prediction as the Basis of Their Validity," Journal of Biological Systems, Vol. 14, No. 1, March 2006, pp. 65-90.

  41. C. Sima, S. Attoor, U.M. Braga-Neto, J. Lowey, E. Suh and E. Dougherty, "Impact of Error Estimation on Feature-Selection Algorithms," Pattern Recognition, Vol. 38, No. 12, December 2005, pp. 2472-2482.

  42. U.M. Braga-Neto and E. Dougherty, "Exact Performance of Error Estimators for Discrete Classifiers," Pattern Recognition, Vol. 38, No. 11, November 2005, pp. 1799-1814. [Preprint]

  43. U.M. Braga-Neto and J. Goutsias, "Constructing Multiscale Connectivities," Computer Vision and Image Understanding, Vol. 99, No. 1, July 2005, pp. 126-150. [Preprint]

  44. U.M. Braga-Neto and J. Goutsias, "Object-Based Image Analysis Using Multiscale Connectivity," IEEE Transactions on Pattern Analysis and Machine Intelligence, Vol. 27, No. 6, June 2005, pp. 892-907. [IEEE Explore] [PubMed]

  45. U.M. Braga-Neto, "Multiscale Connected Operators," Journal of Mathematical Imaging and Vision (Special Issue on Mathematical Morphology After 40 Years), Vol. 22, No. 2-3, May 2005, pp. 199-216. [Preprint]

  46. C. Sima, U.M. Braga-Neto and E. Dougherty, "Superior Feature-Set Ranking for Small Samples Using Bolstered Error Estimation," Bioinformatics, Vol. 21, No. 7, April 2005, pp. 1046-1054. [PubMed]

  47. U.M. Braga-Neto and J. Goutsias, "Grayscale Level Connectivity: Theory and Applications," IEEE Transactions on Image Processing, Vol. 13, No. 12, December 2004, pp. 1567-1580. [IEEE Explore] [PubMed]

  48. U.M. Braga-Neto and E. Dougherty, "Bolstered Error Estimation," Pattern Recognition, Vol. 37, No. 6, June 2004, pp. 1267-1281. [Preprint]

  49. U.M. Braga-Neto and E. Dougherty, "Is Cross-Validation Valid for Small-Sample Microarray Classification?" Bioinformatics, Vol. 20, No. 3, February 2004, pp. 374-380. [PubMed]

  50. U.M. Braga-Neto, R. Hashimoto, E. Dougherty, D. Nguyen and R. Carroll, "Is Cross-Validation Better Than Resubstitution for Ranking Genes?" Bioinformatics, Vol. 20, No. 2, January 2004, pp. 253-258. [PubMed]

  51. U.M. Braga-Neto, M. Choudhary and J. Goutsias, "Automatic target detection and tracking on forward-looking infrared image sequences using morphological connected operators," Journal of Electronic Imaging, Vol. 13, No. 4, 2004, pp. 802-813. [Preprint]

  52. U.M. Braga-Neto and J. Goutsias, "Supremal Multiscale Signal Analysis," SIAM Journal of Mathematical Analysis, Vol. 36, No. 1, 2004, pp. 94-120.

  53. U.M. Braga-Neto and J. Goutsias, "A Theoretical Tour of Connectivity in Image Processing and Analysis," Journal of Mathematical Imaging and Vision, Vol. 19, No. 1, 2003, pp. 5-31.

  54. U.M. Braga-Neto and J. Goutsias, "A Multiscale Approach to Connectivity," Computer Vision and Image Understanding, Vol. 89, No. 1, 2003, pp. 70-107.

  55. U.M. Braga-Neto and J. Goutsias, "Connectivity on Complete Lattices: New Results," Computer Vision and Image Understanding, Vol. 85, No. 1, 2002, pp. 22-53.

  56. X. Han, C. Xu, U.M. Braga-Neto and J.L. Prince, "Topology Correction in Brain Cortex Segmentation Using a Multiscale, Graph-Based Algorithm," IEEE Transactions on Medical Imaging, Vol. 21, No. 2, 2002, pp. 109-121. [IEEE Explore] [PubMed]

  57. A.J. Candéas, U.M. Braga-Neto and E.C.B. Carvalho Filho, "A Mathematical Morphology Approach to the Star/Galaxy Characterization Problem," Journal of the Brazilian Computer Society, Special Issue on Computer Graphics and Image Processing, Vol. 3, No. 3, 1997, pp. 14-29. [HTML]

Book Chapters

  1. R. Dhalia, L. Gil, E. Nascimento, U.M. Braga-Neto and E.T.A. Marques Jr., "Epitope Mapping: Rational Search for the Development of vaccines Against Chronic Diseases" (in Portuguese), In Epidemiology, Policy, and Determining Factors of Chronic Diseases in Brazil (in Portuguese). Edited by Eduardo Freese. Editora Universitária UFPE, Recife, Brazil, 2006, pp. 321-340.

  2. U.M. Braga-Neto and E. Dougherty, "Classification," In Genomic Signal Processing and Statistics, Edited by E. Dougherty, I. Shmulevich, J. Chen and Z. J. Wang, EURASIP Book Series on Signal Processing and Communication, Hindawi Publishing Corporation, 2005. [Preprint]
    Note: The preprint PDF linked above already contains the correct Figures 3.8 and 3.9 (see Erratum).

Selected Conference Papers, Posters, and Abstracts

  1. T. Chen and U.M. Braga-Neto, "Optimal Bayesian MMSE Estimation of the Coefficient of Determination for Discrete Prediction," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2013), Houston, TX, November 2013.

  2. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "Effect of Mixing Probabilities on the Bias of Cross-Validation Under Separate Sampling," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2013), Houston, TX, November 2013.

  3. E. Atashpaz-Gargari, U.M. Braga-Neto and E.R. Dougherty, "Improved Branch-and-Bound Algorithm for U-Curve Optimization," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2013), Houston, TX, November 2013.

  4. T. Chen and U.M. Braga-Neto, "A Statistical Test for Intrinsically Multivariate Predictive Genes," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2012), Washington, DC, December 2012.

  5. U.M. Braga-Neto, "Joint State and Parameter Estimation for Boolean Dynamical Systems," Proceedings of the IEEE Statistical Signal Processing Workshop (SSP'12), Ann Arbor, MI, August 2012. [Preprint]

  6. T. Chen and U.M. Braga-Neto, "Sample-Based Estimators for the Intrinsically Multivariate Prediction Score," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011), San Antonio, TX, December 2011.

  7. S. Afra and U.M. Braga-Neto, "Peaking Phenomenon and Error Estimation for Support Vector Machines," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011), San Antonio, TX, December 2011.

  8. Y. Sun, U.M. Braga-Neto and E.R. Dougherty, "Modeling and systematic analysis of LC-MS proteomics pipeline," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011), San Antonio, TX, December 2011.

  9. E. Atashpaz-Gargari, U.M. Braga-Neto and E.R. Dougherty, "Multiple Reaction Monitoring: Modeling and Systematic Analysis." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011), San Antonio, TX, December 2011.

  10. E. Atashpaz-Gargari, C. Sima, U.M. Braga-Neto and E.R. Dougherty, Relationship Between the Accuracy of Classifier Error Estimation and Distribution Complexity," Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011), San Antonio, TX, December 2011.

  11. Z. Zhang, Y. Sun, U.M. Braga-Neto, E.R. Dougherty and J. Zhang, "A parallel programming framework with Markovian messaging for LCMS peptide peak detection." Proceedings of IEEE International Conference on Bioinformatics and Biomedicine (BIBM'2011), Atlanta, GA, November 2011.

  12. U.M. Braga-Neto, "Optimal State Estimation for Boolean Dynamical Systems," Proceedings of the 45th Asilomar Conference on Signals, Systems, and Computers, Pacific Grove, CA, November 2011. [Preprint]

  13. T. Chen and U.M. Braga-Neto, "Maximum Likelihood Estimation of the Binary Coefficient of Determination," Proceedings of the 45th Asilomar Conference on Signals, Systems, and Computers, Pacific Grove, CA, November 2011.

  14. Y. Sun, J. Zhang, U.M. Braga-Neto and E.R. Dougherty, "BPDA2D - An improved Bayesian peptide detection algorithm for Mass Spectrometry," 59th ASMS Conference on Mass Spectrometry and Allied Topics, Denver, Colorado, June 2001.

  15. T. Chen and Ulisses Braga-Neto, "Maximum Likelihood Estimation of the Binary Coefficient of Determination," Eighth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS'2011), College Station, TX, April 2011.

  16. Y. Sun, J. Zhang, U.M. Braga-Neto and E.R. Dougherty, "BPDA+ - An improved Bayesian peptide detection algorithm for Mass Spectrometry," Eighth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS'2011), College Station, TX, April 2011.

  17. E. Atashpaz-Gargari, C. Sima, U.M. Braga-Neto and E.R. Dougherty, Relationship Between the Accuracy of Classifier Error Estimation and Distribution Complexity," Eighth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS'2011), College Station, TX, April 2011.

  18. Y. Wang, N. Ghaffari, C.D. Johnson, U.M. Braga-Neto, H. Wang, R. Chen and H. Zhou, "Evaluation of Coverage and Depth of Transcriptome by RNA-SEQ In Chickens," Eighth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS'2011), College Station, TX, April 2011.

  19. T. Chen and U.M. Braga-Neto, "Approximate expressions for the variances of non-randomized error estimators and CoD estimators for the discrete histogram rule." Proceedings of the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2010), Cold Spring Harbor, NY, November 2010.

  20. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "RMS bounds and sample size considerations for error estimation in linear discriminant analysis." Proceedings of the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2010), Cold Spring Harbor, NY, November 2010.

  21. C.C. Allen, X. Li, L.O. Tedeschi, H. Zhou, J.A. Paschal, T.E. Spencer, U.M. Braga-Neto, D.H. Keisler, M. Amstalden, and G.L. Williams, "Dietary Treatments that Facilitate Early Onset of Puberty in Heifers Alter Gene Expression in the Arcuate Nucleus." Proceedings of the 42nd SSR Annual Meeting, Pittsburgh, PA, July 2009.

  22. C. Sima, T.T. Vu, U.M. Braga-Neto and E.R. Dougherty, "Bolstered Error Estimation with Feature Selection." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2009), Minneapolis, MN, May 2009.

  23. A. Zollanvari, U.M. Braga-Neto and E.R. Dougherty, "Sample Size Calculation from Specified RMS of the Resubstitution Error for Linear Classifiers." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2009), Minneapolis, MN, May 2009.

  24. E. Nascimento, U.M. Braga-Neto, C. Calzavara-Silva, A. Gomes F. Abath, C Brito, M.Cordeiro, A. Silva, C. Magalhaes, R. Andrade, L. Gil and E.T.A. Marques, Jr., "Gene expression profiling during acute stage of dengue infection can predict patient outcome." Proceedings of First Pan American Dengue Research Network Meeting, Recife, Brazil, July 2008.

  25. E. Nascimento, A. Silva, B. Acioli-Silva, C. Calzavara-Silva, U.M. Braga-Neto, M. Cordeiro, C. Brito, M. Magalhaes, L. Gil and E.T.A. Marques, Jr., "Analysis of Complement System Reveals That Increased Alternative Pathway Activation Is correlated With Dengue Severity." Proceedings of First Pan American Dengue Research Network Meeting, Recife, Brazil, July 2008.

  26. B. Acioli-Silva, E. Nascimento, F. Pastor, C. Calzavara-Silva, A. Gomes, A. Silva, M. Cordeiro, U.M. Braga-Neto, S. Crovella and E.T.A. Marques, Jr., "Complement Factor H (CFH) Promoter Polymorphism C-257T is Correlated with High Levels of CFH mRNA and Protein Expression and Resistance to Dengue Hemorrhagic Fever." Proceedings of First Pan American Dengue Research Network Meeting, Recife, Brazil, July 2008.

  27. E. Nascimento, U.M. Braga-Neto, M. Magalhaes, C. Brito, M. Cordeiro, A. Silva and E.T.A. Marques, Jr., "HLA-C alleles are associated with resistance to sequential dengue infection and clinical outcomes." Proceedings of First Pan American Dengue Research Network Meeting, Recife, Brazil, July 2008.

  28. U.M. Braga-Neto, "An Asymptotically-Exact Expression for the Variance of Classification Error for the Discrete Histogram Rule." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2008), Phoenix, AZ, June 2008.

  29. D.C. Martins, Jr., U.M. Braga-Neto, M.L. Bittner and E.R. Dougherty, "Network Properties of Intrinsically Multivariate Predictive Genes." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2008), Phoenix, AZ, June 2008.

  30. T.T. Vu, U.M. Braga-Neto and E.R. Dougherty, "Preliminary Study on Bolstered Error Estimation in High-Dimensional Spaces." Proceedings of IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2008), Phoenix, AZ, June 2008.

  31. U.M. Braga-Neto, Error Estimation Critically Impacts "Feature Selection in Genomics and Proteomics Applications." Presented at The Fifth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS 2008), Oklahoma City, OK, February 2008.

  32. M. Pereira, A. Pastor, B. Acioli-Santos, L. Segat, R. Dhalia, U.M. Braga-Neto, E.T.A. Marques, Jr. and S. Crovella, "MBL2 gene polymorphisms protect against severe dengue manifestation associated with thrombocytopenia phenotype development." Proceedings of XVIII Brazilian Virology Meeting, Buzios, Brazil, 2007.

  33. L. Alencar, A. Barbosa, K. Barbosa, M. Tenorio, C. Brito, P. Chiklinkar, E. Nascimento, R. Dhalia, U.M. Braga-Neto, E.T.A. Marques, Jr., "Analysis of epitope mapping of the dengue-3 envelope protein on dengue patients: comparison between the enzyme-linked immunospot (elispot) and the multipred epitope predictive computational program." Proceedings of XVII Brazilian Virology Meeting, Campos do Jordao, Brazil, 2006.

  34. U.M. Braga-Neto, "Why Error Estimation is Fundamental to the Estimation of Regulatory Networks." Presented at the Models for Genetic Regulatory Network Workshop, College Station, TX, November 2005.

  35. U.M. Braga-Neto, Small-Sample Error Estimation: Mythology Versus Mathematics. Proceedings of SPIE Vol. 5916: Mathematical Methods in Pattern and Image Analysis. Edited by J.T. Astola, I. Tabus and J. Barrera, San Diego, CA, August 2005.

  36. U.M. Braga-Neto, Grayscale Level Multiconnectivity. Proceedings of the 7th International Symposium on Mathematical Morphology: 40 Years On - ISMM'05. Edited by C. Ronse, L. Najman and E. Decencière, pp. 129-138, Paris, France, April 2005.

  37. U.M. Braga-Neto and John Goutsias, On a General Theory of Connectivity in Image Analysis. Proceedings of the IEEE-EURASIP Workshop on Nonlinear Signal and Image Processing - NSIP'01. Edited by K. Barner, G.Arce and C. Boncelet (CD-ROM), Baltimore, MD, June 2001.

  38. X. Han, C. Xu, U.M. Braga-Neto and J. L. Prince, Graph-Based Topology Correction for Brain Cortex Segmentation. Proceedings of the XVIIth International Conference on Information Processing in Medical Imaging - IPMI'01. Edited by M.F. Insana and R.M. Leahy, pp 395-401, Davis, CA, June 2001.

  39. U.M. Braga-Neto and John Goutsias, Multiresolution Connectivity: An Axiomatic Approach. Proceedings of the 5th International Symposium on Mathematical Morphology and Its Applications to Image and Signal Processing - ISMM'2000. Edited by J. Goutsias, L. Vincent and D. Bloomberg, pp. 159-168, Palo Alto, CA, June 2000.

  40. U.M. Braga-Neto and John Goutsias, Automatic Target Detection and Tracking in Forward-Looking Infrared Image Sequences using Morphological Connected Operators. Proceedings of the 33rd Annual Conference on Information Sciences and Systems - CISS'99. Vol. I, pp. 173-178, Baltimore, MD, March 1999.

  41. U.M. Braga-Neto and John Goutsias, On Detecting Mines and Minelike Objects in Highly Cluttered Multispectral Aerial Images by Means of Mathematical Morphology. In Detection and Remediation Technologies for Mines and Minelike Targets III, Proceedings of SPIE 3392, pp. 987-999, Orlando, FL, April 1998.

  42. U.M. Braga-Neto, "Alternating Sequential Filters by Adaptive-Neighborhood Structuring Functions." Proceedings of the 3rd International Symposium on Mathematical Morphology and Its Applications to Image and Signal Processing - ISMM'96. Edited by P. Maragos, R.W. Schafer and M.A. Butt, pp. 139-146, Atlanta, GA, May 1996.

  43. U.M. Braga-Neto, W.A. Siqueira Neto and A.F. Dias e Silva, "Mammographic Calcification Detection by Mathematical Morphology Methods." Proceedings of the 3rd International Workshop on Digital Mammography. Edited by K. Doi, M.L. Giger, R.M. Nishikawa and R.A. Schmidt, pp. 263-266, Chicago, IL, June 1996.

  44. U.M. Braga-Neto and R.A. Lotufo, "Mathematical Morphology tools for 3-D image analysis of porous media." In Neural, Morphological and Stochastic Methods in Image and Signal Processing, Proceedings of SPIE 2568. Edited by E.R. Dougherty, F. Prêteux and S.S. Shen, pp. 139-150, San Diego, CA, July 1995.


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