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Figure 4 | BMC Bioinformatics

Figure 4

From: Investigating the concordance of Gene Ontology terms reveals the intra- and inter-platform reproducibility of enrichment analysis

Figure 4

The concordance of significant GO terms enriched by GSEA within the same test site of AFX. The comparisons of significant GO terms enriched by GSEA were conducted within a) AFX_1; b) AFX_2; c)AFX_3. Two DEG lists generated by fold change ranking, two DEG lists generated by SAM and two DEG lists generated by t-test were inputted in GSEA to enrich significant GO terms (FDR < 0.25). And then the concordance of two significant GO terms lists derived from two DEGs selected methods was compared on the same p-value cutoff. The red markers reflect the percentages of overlapping GO terms by using fold change ranking and SAM for generating DEG lists. The blue markers reflect the percentages of overlapping GO terms by using fold change ranking and t-test for generating DEG lists. The olive markers reflect the percentages of overlapping GO terms by using SAM and t-test for generating DEG lists. The _1, _2 and _3 suffixes refer to test site location.

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BMC Bioinformatics

ISSN: 1471-2105

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