Pathway analysis methods are frequently applied to cancer gene expression data to identify
dysregulated pathways. These methods often infer pathway activity based on the expression …

Multiple methods have been proposed to estimate pathway activities from expression
profiles, and yet, there is not enough information available about the performance of those …

Pathway analysis is a popular method aiming to derive biological interpretation from high-
throughput gene expression studies. However, existing methods focus mostly on identifying …

Identifying dysregulated pathways from high-throughput experimental data in order to infer
underlying biological insights is an important task. Current pathway-identification methods …

Background Signal transduction pathways convey information from the outside of the cell to
transcription factors, which in turn regulate gene expression. Our objective is to analyze …

We propose a new way of analyzing biological pathways in which the analysis combines
both transcriptome data and mutation information and uses the outcome to identify “routes” …

Pathway analysis provides a powerful approach for identifying the joint effect of genes
grouped into biologically-based pathways on disease. Pathway analysis is also an attractive …

Identification of differentially expressed pathways from expression data is an important
problem because it allows us to gain insights into the functional working mechanism of cells …

Motivation: Although progress has been made identifying regulatory relationships from
expression data in general, only few methods have focused on detecting biological …

Investigators require intuitive tools to rationalize complex datasets generated by
transcriptional profiling experiments. Pathway analysis methods, in which differentially …