Tree-based statistics per module. The trees were reconstructed based on module preservation scores (cor.kIM) within and across species. The tips of resulting tree represent the replicates and the branch lengths represent the dissimilarity of connectivity patterns between the replicates. The total tree length is the sum of all branch lengths in the tree and it measures module variability both within and across species, while the within-species_diversity is the sum of the human, gorilla and cynomolgus within-species branch lengths and it measures module variability within species only. These statistics were calculated for all possible jackknifed versions of the modules, each of which was created by removing a target gene assigned to the given module (the regulators were never excluded). Then the statistics were summarized per module by taking the median and its 95% confidence interval across all jackknifed module versions.
Format
A data frame with 7 rows and 10 columns:
- regulator
Character, transcriptional regulator.
- module_size
Module size, the numer of target genes assigned to a regulator.
- total_tree_length
The median of total tree lengths across all jackknifed versions of the module.
- var_total_tree_length
The variance of total tree lengths across all jackknifed versions of the module.
- lwr_total_tree_length
The lower bound of the 95% confidence interval of the total tree length calculated by jackknifing.
- upr_total_tree_length
The upper bound of the 95% confidence interval of the total tree length calculated by jackknifing.
- within_species_diversity
The median of within-species_diversity values across all jackknifed versions of the module.
- var_within_species_diversity
The variance of within-species_diversity values across all jackknifed versions of the module.
- lwr_within_species_diversity
The lower bound of the 95% confidence interval of the within-species_diversity calculated by jackknifing.
- upr_within_species_diversity
The upper bound of the 95% confidence interval of the within-species_diversity calculated by jackknifing.