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| Differential Pathway Enrichment Analysis× | RNA-seq Differential Expression× | |
|---|---|---|
| Fagområde | Bioinformatik | Bioinformatik |
| Familie | Process / pipeline | Process / pipeline |
| Oprindelsesår≠ | 2004–2012 | 2008–2010 (RNA-seq DE methodology established) |
| Ophavsperson≠ | Extended from Over-Representation Analysis (Draghici et al. 2003) and competitive gene-set testing (Smyth lab, ~2004–2012) | Multiple groups; foundational methods from Anders & Huber (DESeq, 2010), Robinson, McCarthy & Smyth (edgeR, 2010) |
| Type≠ | Comparative enrichment analysis | Quantitative genomics pipeline |
| Oprindelig kilde≠ | Wu, D., & Smyth, G. K. (2012). Camera: a competitive gene set test accounting for inter-gene correlation. Nucleic Acids Research, 40(17), e133. DOI ↗ | Love, M. I., Huber, W., & Anders, S. (2014). Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology, 15(12), 550. DOI ↗ |
| Aliasser | differential enrichment analysis, comparative pathway enrichment, DPEA, cross-condition pathway analysis | RNA-seq DE analysis, transcriptomic differential expression, bulk RNA-seq DE, DEA |
| Relaterede≠ | 5 | 6 |
| Resumé≠ | Differential pathway enrichment analysis identifies biological pathways whose enrichment signals differ significantly between two or more experimental conditions — for example, between two diseases, two treatments, or two cell types. Rather than asking which pathways are enriched in one condition, it asks which pathways show a statistically meaningful change in enrichment level across conditions, revealing condition-specific or context-dependent biology. | RNA-seq differential expression (DE) analysis identifies genes whose transcript abundance differs significantly between two or more biological conditions — for example, treated versus control, or diseased versus healthy tissue. Starting from raw sequencing reads, the pipeline moves through alignment, count-based normalization, statistical modeling of count dispersion, hypothesis testing, and multiple-testing correction to produce a ranked list of differentially expressed genes accompanied by fold-change estimates and adjusted p-values. |
| ScholarGateDatasæt ↗ |
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