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During comparative analysis, the major themes and subthemes arising from the two separate datasets were analysed and compared to determine similarities and differences.
The H/L ratios representing Doxo/Control or Etop/Control from two acquired datasets were analysed and compared to delineate a comprehensive proteomic profile contributed by different genotoxic drugs.
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Both datasets were analysed separately and neither compared until both analyses were complete.
These datasets were analysed using both parsimony and Bayesian methods in TNT and MrBayes 3.1, respectively.
No qualitative differences were noted when the UK and Ireland datasets were analysed separately for these two SNPs (supplementary tables 1 and 2, available online only).
With PhyloBayes, both amino-acid and nucleotide datasets were analysed under the CAT + GTR + G4 mixture model, and under the standard LG + G and GTR + G models, respectively.
Two datasets were analysed: i) all Anas platyrhynchos and other duck species (the same individuals as analysed by PCA, see Figure 2c); ii) only the other species (cf. Figure 2b) plus the putative hybrid between Anas platyrhynchos and Anas acuta.
The datasets were analysed utilising a 2x2 contingency table and Fisher exact probability test with two tailed p-value as shown in tables one and two.
All five transcriptomics datasets were analysed using the seven ML methods and BioHEL+RGIFE (Table 3).
The microarray and proteomics datasets were analysed by Gene Ontology (GO) [ 27] profiling using Fisher's exact test.
On the basis of ProtTest results, the datasets were analysed with a discrete gamma distribution and the empirical amino acids frequencies (WAG+G+F).
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