clusterSeq

clusterSeq identifies clusters of co-expressed genes by analyzing expression patterns across multiple replicated biological samples to reveal structural relationships between experimental conditions.

Key Features:

• Incorporation of structural elements: Integrates the overarching structure of expression data rather than relying solely on pairwise gene correlations.
• Cluster-based analysis: Identifies gene clusters to reveal broader functional relationships and networks rather than individual gene pairs.

Scientific Applications:

• Functional genomics: Reveals groups of co-expressed genes to inform gene regulatory mechanisms across conditions.
• Systems biology: Maps gene networks and pathways by identifying coordinated expression patterns among gene clusters.

Methodology:

Detects clusters of genes with coordinated expression patterns by considering the overarching structure of the expression data and going beyond pairwise gene correlations to capture relationships across experimental conditions.