ArticleMolecules and cells2019
NGSEA: Network-Based Gene Set Enrichment Analysis for Interpreting Gene Expression Phenotypes with Functional Gene Sets.
Article in Molecules and cells, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed, 32 citations in OpenAlex.
- PEANUT: Pathway Enrichment Analysis through Network UTilization.Bioinformatics (Oxford, England) · 2025Article
- Unveiling the role of lipid metabolism in haemorrhagic disorders: genetic insights and therapeutic perspectives.Thrombosis journal · 2025Article
- Transcriptome analysis revealed SMURF2 as a prognostic biomarker for oral cancer.Journal of applied genetics · 2025Article
- AI driven network pharmacology: Multi-scale mechanisms of traditional Chinese medicine from molecular to patient analysis.Computational and structural biotechnology journal · 2025Review
- Galactin-3 regulation of CDC42 promotes neuronal autophagy following spinal cord injury.Frontiers in cellular neuroscience · 2025Article
- A best-match approach for gene set analyses in embedding spaces.Genome research · 2024Article
- Analysis of gene expression in microglial apoptotic cell clearance following spinal cord injury based on machine learning algorithms.Experimental and therapeutic medicine · 2024Article
- Hspb1 and Lgals3 in spinal neurons are closely associated with autophagy following excitotoxicity based on machine learning algorithms.PloS one · 2024Article
- Coherent pathway enrichment estimation by modeling inter-pathway dependencies using regularized regression.Bioinformatics (Oxford, England) · 2023Article
- High Expression ofGenes · 2023Article
- Using a Network-Based Analysis Approach to Investigate the Involvement ofInternational journal of molecular sciences · 2023Article
- Gene set proximity analysis: expanding gene set enrichment analysis through learned geometric embeddings, with drug-repurposing applications in COVID-19.Bioinformatics (Oxford, England) · 2023Article
- Review
- Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review.Biomolecules · 2021Review
- PIGNON: a protein-protein interaction-guided functional enrichment analysis for quantitative proteomics.BMC bioinformatics · 2021Article
- Drug Repurposing for COVID-19 Treatment by Integrating Network Pharmacology and Transcriptomics.Pharmaceutics · 2021Article
- Aberrantly DNA Methylated-Differentially Expressed Genes in Pancreatic Cancer Through an Integrated Bioinformatics Approach.Frontiers in genetics · 2021Article
- Systems biology analysis identifiesComputational and structural biotechnology journal · 2021Article
- Multi-Omics Analysis Provides Novel Insight into Immuno-Physiological Pathways and Development of Thermal Resistance in Rainbow Trout Exposed to Acute Thermal Stress.International journal of molecular sciences · 2020Article
- Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene set enrichment analysis (GSEA) is a popular tool to identify underlying biological processes in clinical samples using their gene expression phenotypes. GSEA measures the enrichment of annotated gene sets that represent biological processes for differentially expressed genes (DEGs) in clinical samples. GSEA may be suboptimal for functional gene sets; however, because DEGs from the expression dataset may not be functional genes
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.