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Table 2 Flowchart and main outcomes of each analysis performed in this study

From: Evidence that DNA repair genes, a family of tumor suppressor genes, are associated with evolution rate and size of genomes

Analysis Outcome
Identification of all vertebrate species that can be characterized as living fossil or radiated species, with available whole genome sequencing data and complete gene annotation 20 living fossil species
24 radiated species
Genes in common per group Living fossil species: 2861 genes in common
Radiated species: 3590 genes in common
Genes in common per group, not found in the other group Living fossil species: 1534 unique genes
Radiated species: 2263 unique genes
Pathway (biological processes) and reactome analyses, unique ones Living fossil species: 0 pathways, 2 reactomes
Radiated species: 7 pathways, 2 reactomes
Significant process revealed by both algorithms Living fossil species: None
Radiated species: DNA repair and cellular response to DNA damage (FDR = 8.35 × 10−5; 7.15 × 10−6, respectively)
Search for 151 known DNA repair genes in the 45 species’ genomes Mean comparison analysis More DNA repair genes in radiated species than in living fossil species (p = 5.3 × 10−3)
Most significant gene subcategory: Nucleotide excision repair (p = 5.00 × 10−4)
Linear regression: DNA repair genes number vs genome size or protein number Genome size/protein number is linearly related with the number of DNA repair genes (p < 1.0 × 10−4)
  1. FDR false discovery rate
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