We sought to develop a new function-based approach for comparing profiles, which can truly scale across the diversity of available experiments, platforms, and species.
The most parsimonious explanation of the data is that one of the duplicated genes developed a new function of ice binding before differentiation of Otocephala and Euteleostei groups from the ancestral Clupeocephalan (Figure 3C).
Fourth, one copy may retain the original function, while the other develops a new function (neofunctionalization) [ 32- 38].
After the origin of CDS, it developed a new function, involved in the biosynthetic pathway of irregular monoterpenes.
After gene duplication, duplicates can have different functional fates, such as maintaining the same function as the ancestral single-copy gene, developing a new function, etc.
Given the high evolution rate of MHCI molecules (Kumanovics et al. 2003), it is likely that a fraction of classical MHCI proteins developed a new function and localization.
In contrast, euteleostean clade II genes are thought to have developed a new function, the solubilization of the swollen egg envelope by cleavage at two specific sites.
Also, we intend to develop a new mathematical function for fitness evaluation.
We may conclude that to choose an existing ranking algorithm or to develop a new ranking function depends on the work to be applied and on what the researchers want to achieve.
In EpiBN, we develop a new scoring function, which can reflect higher-order epistatic interactions by estimating the model complexity from data, and apply a fast Branch-and-Bound algorithm to learn the structure of a two-layer Bayesian network containing only one target node.
