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| __NOTOC__
| | #REDIRECT [[Labpib:Ricardo_Z.N._Vencio]] |
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| ==Introduction | Introdução==
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| [[Image:rvencio.png|thumb|right|]]
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| I have been working on the development of mathematical/computational methods for the solution of problems in Biology and Medicine. In 2008 I joined the University of São Paulo's Medical School at Ribeirão Preto (FMRP-USP) as Assistant Professor to conduct research and teaching activities on Bioinformatics at the Genetics Department. Now I'm working on the process of recruiting good people and building my lab, both virtually and physically. The virtual lab will be hosted here at OWW soon.
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| Venho trabalhando na criação de método matemáticos/computacionais para a solução de problemas em Biologia e Medicina. Em 2008 integrei-me ao corpo docente da Faculdade de Medicina de Ribeirão Preto, na Universidade de São Paulo (FMRP-USP), como Professor Doutor (MS-3) para desenvolver atividades de pesquisa e ensino em Bioinformática no Departamento de Genética. Atualmente eu estou trabalhando no precesso de recrutar bons integrantes e construindo meu laboratório, tanto virtualmente quanto fisicamente. O laboratório virtual vai ser hospedado aqui no OWW logo.
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| ==Education | Formação==
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| * 2006 - 2008, Post-doctorate | Pós-doutorado, Institute for Systems Biology
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| * 2005 - 2006, PhD Bioinformatics | Doutorado em Bioinformática, Universidade de São Paulo
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| * 2002 - 2004, MS Statistics | Mestrado em Estatística, Instituto de Matemática e Estatística da Universidade de São Paulo
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| * 1998 - 2001, BS Physics | Graduação em Física, Instituto de Física da Universidade de São Paulo
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| ==Publications | Publicações==
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| Due to some evil copyright issues, I can't make available here all papers I co-authored. However, how about [http://www.vision.ime.usp.br/~rvencio/Rvencio/ at this link] ? And remember... Google is your friend ;-)
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| Devido a algumas questões malígnas de direitos autorais, eu não posso deixar disponíveis aqui todos os artigos em que fui co-autor. Entretanto, que tal [http://www.vision.ime.usp.br/~rvencio/Rvencio/ neste link] ? E lembre-se, o Google é seu amigo ;-)
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| ====Methods | Métodos====
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| Using credibility intervals instead of hypothesis tests in SAGE analysis<br>
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| Vêncio, <i>et al.</i> (2003) Bioinformatics, 19, 2461-2464.<br>
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| Bayesian model accounting for within-class biological variability in Serial Analysis of Gene Expression (SAGE)<br>
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| Vêncio, <i>et al.</i> (2004) BMC Bioinformatics, 5, 119.<br>
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| HTself: self-self based statistical test for low-replication microarray studies<br>
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| Vêncio and Koide (2005) DNA Research, 12, 211-214<br>
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| BayGO: Bayesian analysis of ontology term enrichment in microarray data<br>
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| Vêncio, <i>et al.</i> (2006) BMC Bioinformatics, 7, 86<br>
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| SpotWhatR: an user-friendly microarray data analysis system<br>
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| Koide, <i>et al.</i> (2006) Genetics and Molecular Research, 5, 93-107<br>
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| BayBoots: a model-free Bayesian tool to identify class markers from gene expression data<br>
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| Vêncio, <i>et al.</i> (2006) Genetics and Molecular Research, 5, 138-142<br>
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| Simcluster: clustering enumeration gene expression data on the simplex space<br>
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| Vêncio and Varuzza, <i>et al.</i> (2007) BMC Bioinformatics, 8, 246<br>
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| ProbCD: enrichment analysis accounting for categorization uncertainty<br>
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| Vêncio and Shmulevich (2007) BMC Bioinformatics, 8, 383<br>
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| ====Applied | Aplicações====
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| DNA microarray-based genome comparison of a pathogenic and a nonpathogenic strain of <i>Xylella fastidiosa</i> delineates genes important for bacterial virulence<br>
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| Koide and Zaini, <i>et al.</i> (2004) Journal of Bacteriology, 186, 5442-5449.<br>
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| DNA microarrays for comparative genomics and analysis of gene expression in <i>Trypanosoma cruzi</i><br>
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| Baptista, <i>et al.</i> (2004) Molecular and Biochemical Parasitology, 138, 183-194.<br>
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| Gene discovery and expression profile analysis through EST sequencing from different developmental stages of the chytridiomycete <i>Blastocladiella emersonii</i><br>
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| Ribichich, <i>et al.</i> (2005) Eukaryotic Cell, 4, 455-464.<br>
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| Transcription profiling of signal transduction-related genes in sugarcane tissues<br>
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| Papini-Terzi, <i>et al.</i> (2005) DNA Research, 12, 27-38.<br>
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| Whole-genome expression profiling of <i>Xylella fastidiosa</i> in response to growth on glucose<br>
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| Pashalidis, Zaini and Moreira, <i>et al.</i> (2005) OMICS, 9, 77-90.<br>
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| Gene expression profile associated to response to doxorubicin based therapy in breast cancer<br>
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| Folgueira, <i>et al.</i> (2005) Clinical Cancer Research, 11, 7434-7443<br>
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| Evaluation of reference-based two-color methods for measurement of gene expression ratios using spotted cDNA microarrays<br>
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| Peixoto, <i>et al.</i> (2006) BMC Genomics, 7, 35<br>
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| Global gene expression analysis of the heat shock response in the phytopathogen <i>Xylella fastidiosa</i><br>
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| Koide, <i>et al.</i> (2006) Journal of Bacteriology, 188, 5821-5830<br>
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| Differential transcription profiles in <i>Trypanosoma cruzi</i> associated with clinical forms of Chagas disease: maxicircle NADH dehydrogenase subunit 7 gene truncation in asymptomatic patient isolates<br>
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| Baptista, <i>et al.</i> (2006) Molecular and Biochemical Parasitology,150, 236-248<br>
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| Signal transduction-related responses to phytohormones and environmental challenges in sugarcane<br>
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| Rocha, <i>et al.</i> (2007) BMC Genomics, 8, 71<br>
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| Common molecular pathways involved in human CD133+ / CD34+ progenitor cell expansion and cancer <br>
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| Okamoto, <i>et al.</i> (2007) Cancer Cell International, 7, 11<br>
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| Multisite fMRI reproducibility of a motor task using identical MR systems<br>
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| Costafreda, <i>et al.</i> (2007) Journal of Magnetic Resonance Imaging, 26, 1122-1126<br>
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| Comparative transcriptome analysis of <i>Listeria monocytogenes</i> strains of the two major lineages reveals differences in virulence, cell wall and stress response<br>
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| Severino, <i>et al.</i> (2007) Applied and Environmental Microbiology, 73, 6078-6088<br>
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| The SUCEST-FUN project: identifying genes that regulate sucrose content in sugarcane plants<br>
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| Papini-Terzi, <i>et al.</i> (2008) Sugar Cane International, 26, 25-29<br>
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| The Iron Stimulon of <i>Xylella fastidiosa</i> Includes Genes for Type IV Pilus and Colicin V-Like Bacteriocins<br>
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| Zaini, <i>et al.</i> (2008) Journal of Bacteriology, 190, 2368-2378<br>
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| ====Other | Outras====
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| Intellectual property and public research in biotechnology: the scientists opinion<br>
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| Coutinho, <i>et al.</i> (2003) Scientometrics, 58, 641-656.<br>
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| Biology and Physics integration: building genetic regulatory networks using differential equations (in Portuguese)<br>
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| Vêncio and Oliveira (2006) Revista Brasileira de Ensino de Bioquímica e Biologia Molecular, 1/2006<br>
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| Chapter 11 - Statistical Methods in Serial Analysis of Gene Expression (SAGE)<br>
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| Vêncio and Brentani (2006) in Computational and Statistical Approaches to Genomics - 2nd edition (eds: Zhang and Shmulevich), Springer, ISBN:0-387-26287-3<br>
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| Chapter 2 - Constructing probabilistic genetic networks of <i>Plasmodium falciparum</i> from dynamical expression signals of the intraerythrocytic development cycle.<br>
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| Barrera, <i>et al.</i> (2006) in Methods of Microarray Data Analysis V (eds: McConnell, Lin and Hurban), Springer, ISBN: 978-0-387-34568-0 <br>
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| Genes associated to sucrose content<br>
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| Mendes, <i>et al.</i> (2007) United States Patent Application 20070292874<br>
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| ====Contributions to Wikipedia | Contribuições a Wikipédia====
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| [http://pt.wikipedia.org/w/index.php?title=Especial:Contribui%C3%A7%C3%B5es&limit=1000&contribs=user&target=Rvencio&namespace=0 in Portuguese | em português]
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| [http://en.wikipedia.org/w/index.php?title=Special:Contributions&limit=1000&contribs=user&target=Rvencio&namespace=0 in English | em inglês]
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| ==Contact Information | Informações para Contato==
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| Prof. Dr. Ricardo Zorzetto Nicoliello Vêncio<br>
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| University of Sao Paulo | Universidade de São Paulo<br>
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| Medical School at Ribeirão Preto | Faculdade de Medicina de Ribeirão Preto<br>
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| Genetics Department | Departamento de Genética<br>
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| <br>
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| Av. Bandeirantes, 3900<br>
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| Monte Alegre<br>
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| 14049-900<br>
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| Ribeirao Preto, SP<br>
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| Brazil | Brasil<br>
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| <br>
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| rvencio@usp.br<br>
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| [[Special:Emailuser/Ricardo Z.N. Vencio|Email me through OpenWetWare]]<br> | |
| <br>
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