ProbFAST: Probabilistic Functional Analysis System Tool

BMC Bioinformatics

Software

Ricardo ZN Vêncio¹  Wilson A Silva²  Israel T Silva²  Greice A Molfetta²  Thiago YK Oliveira² 

[1] Department of Genetics, Faculty of Medicine, University of São Paulo, Ribeirão Preto, Brazil;Department of Genetics, Faculty of Medicine, University of São Paulo, Ribeirão Preto, Brazil;National Institute of Science and Technology in Stem Cell and Cell Therapy, Center for Cell Therapy and Regional Blood Center, Ribeirão Preto, Brazil;

关键词: Melanoma;    Functional Category;    Enrichment Analysis;    Common Gateway Interface;    Melanoma Cell Adhesion Molecule;   

DOI  :  10.1186/1471-2105-11-161

 received in 2009-06-01, accepted in 2010-03-30,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundThe post-genomic era has brought new challenges regarding the understanding of the organization and function of the human genome. Many of these challenges are centered on the meaning of differential gene regulation under distinct biological conditions and can be performed by analyzing the Multiple Differential Expression (MDE) of genes associated with normal and abnormal biological processes. Currently MDE analyses are limited to usual methods of differential expression initially designed for paired analysis.ResultsWe proposed a web platform named ProbFAST for MDE analysis which uses Bayesian inference to identify key genes that are intuitively prioritized by means of probabilities. A simulated study revealed that our method gives a better performance when compared to other approaches and when applied to public expression data, we demonstrated its flexibility to obtain relevant genes biologically associated with normal and abnormal biological processes.ConclusionsProbFAST is a free accessible web-based application that enables MDE analysis on a global scale. It offers an efficient methodological approach for MDE analysis of a set of genes that are turned on and off related to functional information during the evolution of a tumor or tissue differentiation. ProbFAST server can be accessed at http://gdm.fmrp.usp.br/probfast.

【 授权许可】

CC BY   
© Silva et al; licensee BioMed Central Ltd. 2010