The advances on DNA microarray technologies have enabled researchers to gain hundreds to thousands of gene expression levels. Much effect has been devoted over the past decade to analyze the gene expression data. In this study, flexible neural tree (FNT) model is used for gene regulatory network reconstruction and time-series prediction from gene expression profiling. We use voting strategy and...

MOTIVATION Gene networks have been used widely in gene function prediction algorithms, many based on complex extensions of the 'guilt by association' principle. We sought to provide a unified explanation for the performance of gene function prediction algorithms in exploiting network structure and thereby simplify future analysis. RESULTS We use co-expression networks to show that most exploi...

have developed a gene prediction program GeneKey. When trained with the widely used dataset lected by Kulp and Reese, GeneKey can achieve high prediction accuracy for genes with derate and high C+G contents. However, the prediction accuracy is much lower for CG-poor es. To tackle this problem, we construct a new LCG316 dataset composed of gene sequences h low C+G contents. For CG-poor genes, th...

background: the study of the association between genotype and phenotype is of great importance for the prediction of many diseases and pathophysiological conditions. the relationship between angiotensin-converting enzyme (ace) gene insertion/ deletion (i/d) polymorphism and pathological processes such as coronary artery disease (cad) has been investigated previously with discordant results. thi...

Abstract Background Exploring the relationship between disease and gene is of great significance for understanding pathogenesis developing corresponding therapeutic measures. The prediction disease-gene association by computational methods accelerates process. Results Many existing cannot fully utilize multi-dimensional biological entity to predict due multi-source heterogeneous data. This pape...

Computational gene prediction and identifying alternatively spliced isoforms have always been a challenging task. In this paper, we describe the performance of three gene/exon finding programmes namely Fex, Gen view2 and Gene builder capable of predicting open reading frames or exons for a given set of sequences from C. elegans genome. The predicted exons were compared with the 'sequencing cons...

Network-based computational approaches to predict unknown genes associated with certain diseases are of considerable significance for uncovering the molecular basis of human diseases. In this paper, we proposed a kind of new disease-gene-prediction methods by combining the path-based similarity with the community structure in the human protein-protein interaction network. Firstly, we introduced...

Since the introduction of in vitro fertilization (IVF) in clinical practice of infertility treatment, the indicators for high quality embryos were investigated. Cumulus cells (CC) have a specific gene expression profile according to the developmental potential of the oocyte they are surrounding, and therefore, specific gene expression could be used as a biomarker. The aim of our study was to co...