Additional file 3 of Selection for environmental variance of litter size in rabbits involves genes in pathways controlling animal resilience

Additional file 3. Classification of candidate genes in general biological processes according to their gene ontologies (GO). An in-house R script was used to group the gene ontology (GO) of the candidate genes in general biological pathways. For that, we created a dictionary for each biological pathway with their keyworks (for example, cytokine for immune system). Then, we matched these keywords with the GO description of each gene extracted from Ensembl 103 (see Additional file 6) using the package biomaRt. Each description containing the keyword was assigned to its biological pathway. Gene with GO terms for which it was difficult to assign a biological process were included in the category of “Other Processes”, for example, MutSbeta complex. All keywords were extracted from the literature. The percentage of each biological pathway was calculated as the ratio between the number of GO identified in the biological pathway (Xi) relative to the total number of GO (N); $$\frac{{X}_{i}}{N}$$ X i N × 100. Using this in-house R script, we obtained a general vision of the pathways based on the GO of the candidate genes. This is an initiative named PATHionary. You can support it with your knowledge through the following link; https://forms.gle/yAt3S2JDUEzQxoLu9 .