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Table 3 GO enrichment analysis of linkage disequilibrium block on LG02

From: Highly localized divergence within supergenes in Atlantic cod (Gadus morhua) within the Gulf of Maine

GO.ID Term Annotated Significant Fisher pval padj
GO:0006325 chromatin organization 142 18 1.70E-14 2.52E-11
GO:0065004 protein-DNA complex assembly 105 16 2.80E-14 2.52E-11
GO:0071824 protein-DNA complex subunit organization 105 16 2.80E-14 2.52E-11
GO:0051276 chromosome organization 178 19 7.10E-14 4.76E-11
GO:0006334 nucleosome assembly 100 15 2.50E-13 9.39E-11
GO:0031497 chromatin assembly 100 15 2.50E-13 9.39E-11
GO:0034728 nucleosome organization 100 15 2.50E-13 9.39E-11
GO:0006333 chromatin assembly or disassembly 101 15 2.90E-13 9.57E-11
GO:0006323 DNA packaging 106 15 6.00E-13 1.77E-10
GO:0071103 DNA conformation change 112 15 1.40E-12 3.65E-10
GO:0034622 cellular macromolecular complex assembly 180 16 1.30E-10 3.26E-08
GO:0043933 macromolecular complex subunit organization 324 20 3.90E-10 8.64E-08
GO:0006461 protein complex assembly 244 17 1.50E-09 2.91E-07
GO:0070271 protein complex biogenesis 244 17 1.50E-09 2.91E-07
GO:0065003 macromolecular complex assembly 258 17 3.60E-09 6.38E-07
GO:0071822 protein complex subunit organization 271 17 7.50E-09 1.24E-06
GO:0022607 cellular component assembly 308 18 7.90E-09 1.24E-06
GO:0006996 organelle organization 432 21 1.00E-08 1.50E-06
GO:0044085 cellular component biogenesis 339 18 3.50E-08 4.95E-06
GO:0016043 cellular component organization 636 22 1.70E-06 0.00023
GO:0071840 cellular component organization or biogenesis 666 22 3.70E-06 0.00047
GO:0042157 lipoprotein metabolic process 32 5 2.70E-05 0.0032
GO:0044711 single-organism biosynthetic-process 295 9 0.0061 0.7060
GO:0006897 endocytosis 35 3 0.0071 0.7895
GO:0043543 protein acylation 12 2 0.0078 0.8318
GO:0016568 chromatin modification 38 3 0.0089 0.8645
  1. Using topGO, (in R), enrichment analysis shows multiple GO categories that may be enriched in the LD block from LG02, mostly centered on DNA/chromatin structuring. Total number of annotated genes in each GO category is shown, as well as those within the LD block that are significant (Fisher test p < 0.01). Multiple-test correction (calculated as false-discovery rate, ‘fdr’) is shown in p-adj column, p-values < 0.05 shown in bold