ActivePathways - Integrative Pathway Enrichment Analysis of Multivariate Omics
Data
Framework for analysing multiple omics datasets in the
context of molecular pathways, biological processes and other
types of gene sets. The package uses p-value merging to combine
gene- or protein-level signals, followed by ranked
hypergeometric tests to determine enriched pathways and
processes. Genes can be integrated using directional
constraints that reflect how the input datasets are expected
interact with one another. This approach allows researchers to
interpret a series of omics datasets in the context of known
biology and gene function, and discover associations that are
only apparent when several datasets are combined. The recent
version of the package is part of the following publication:
Directional integration and pathway enrichment analysis for
multi-omics data. Slobodyanyuk M^, Bahcheli AT^, Klein ZP,
Bayati M, Strug LJ, Reimand J. Nature Communications (2024)
<doi:10.1038/s41467-024-49986-4>.
