方法对比

	多组学基因集富集分析	通路富集分析
领域	生物信息学	生物信息学
方法族	Process / pipeline	Process / pipeline
起源年份	2005 (GSEA foundation); multi-omics extensions ~2013–2020	2003–2005
提出者	Extended from Subramanian et al. (2005); multi-omics integration formalized ~2010s	Mootha et al. (2003); systematised by Subramanian et al. (2005)
类型	Integrative enrichment analysis pipeline	Statistical functional annotation method
开创性文献	Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., & Mesirov, J. P. (2005). Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proceedings of the National Academy of Sciences, 102(43), 15545–15550.	Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., & Mesirov, J. P. (2005). Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proceedings of the National Academy of Sciences, 102(43), 15545–15550.
别名	multi-omics GSEA, integrated GSEA, cross-omics pathway enrichment, multi-layer GSEA	PEA, overrepresentation analysis, ORA, functional enrichment analysis
相关	6	6
摘要	Multi-omics gene set enrichment analysis (multi-omics GSEA) is a computational pipeline that applies GSEA logic simultaneously across two or more molecular measurement layers — such as transcriptomics, proteomics, and metabolomics — to identify biological pathways or gene sets that are coordinately dysregulated across omics platforms. By integrating ranked molecular signatures from each layer, it reveals pathway-level convergence that no single omics platform could detect alone.	Pathway enrichment analysis (PEA) is a statistical approach that takes a list of genes or proteins of interest — typically derived from a differential expression or proteomics experiment — and identifies which pre-defined biological pathways or functional gene sets are represented more often than expected by chance. By mapping individual molecular changes onto curated pathway knowledge bases such as KEGG, Gene Ontology, or Reactome, PEA translates long gene lists into interpretable biological processes, making it a central tool in the post-analysis of high-throughput omics experiments.