Spectral analysis of gene expression profiles using gene networks

Details Spectral analysis of gene expression profiles using gene networks Spectral analysis of gene expression profiles using gene networks

2006-03-26

arxiv.org/abs/q-bio/0603030v1

Biology

Quantitative Biology

Quantitative Methods

Scientific paper

Microarrays have become extremely useful for analysing genetic phenomena, but establishing a relation between microarray analysis results (typically a list of genes) and their biological significance is often difficult. Currently, the standard approach is to map a posteriori the results onto gene networks to elucidate the functions perturbed at the level of pathways. However, integrating a priori knowledge of the gene networks could help in the statistical analysis of gene expression data and in their biological interpretation. Here we propose a method to integrate a priori the knowledge of a gene network in the analysis of gene expression data. The approach is based on the spectral decomposition of gene expression profiles with respect to the eigenfunctions of the graph, resulting in an attenuation of the high-frequency components of the expression profiles with respect to the topology of the graph. We show how to derive unsupervised and supervised classification algorithms of expression profiles, resulting in classifiers with biological relevance. We applied the method to the analysis of a set of expression profiles from irradiated and non-irradiated yeast strains. It performed at least as well as the usual classification but provides much more biologically relevant results and allows a direct biological interpretation.

Affiliated with

Also associated with

No associations

Rating

Spectral analysis of gene expression profiles using gene networks does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Spectral analysis of gene expression profiles using gene networks, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Spectral analysis of gene expression profiles using gene networks will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-608029