Annotating gene function by combining expression data with a modular gene network

Annotating gene function by combining expression data with a modular gene network

MOTIVATION A promising and reliable approach to annotate gene function is clustering genes not only by using gene expression data but also literature information, especially gene networks. RESULTS We present a systematic method for gene clustering by combining these totally different two types of data, particularly focusing on network modularity, a global feature of gene networks. Our method ...

Estimating gene networks from gene expression data by combining Bayesian network model with promoter element detection

We present a statistical method for estimating gene networks and detecting promoter elements simultaneously. When estimating a network from gene expression data alone, a common problem is that the number of microarrays is limited compared to the number of variables in the network model, making accurate estimation a difficult task. Our method overcomes this problem by integrating the microarray ...

Combining Gene Expression Data with DNA Sequence Information for Estimating Gene Networks Using Bayesian Network Model

Annotating Gene Functions by Spectral Clustering for Combining Gene Expressions and Sequences

Annotating gene functions is a fundamental issue in the post-genomic era. A typical procedure for this issue is first clustering genes and then assigning functions of unknown genes by using known genes in the same cluster. A lot of genomic information are available for this issue, but two major types of data which can be measured for any genes are microarray expressions and sequences, both of w...

Prediction of blood cancer using leukemia gene expression data and sparsity-based gene selection methods

Background: DNA microarray is a useful technology that simultaneously assesses the expression of thousands of genes. It can be utilized for the detection of cancer types and cancer biomarkers. This study aimed to predict blood cancer using leukemia gene expression data and a robust ℓ2,p-norm sparsity-based gene selection method. Materials and Methods: In this descriptive study, the microarray ...