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(We also note that while we only analyzed our experimental data for single nucleotide substitutions, in principle the same p-value scoring approach could be applied to other types of mutation events, e.g. deletions or insertions).
Of course, simulated evolution of a population of NK networks can proceed by multiple such changes in a single generation or by other types of mutation, such as gene duplication or loss (e.g. [4]), and this has been a productive avenue for research on network evolution.
Although other types of mutation also create differentiation blocks in AML, the large increases in relative risk in Fanconi anemia suggests that gene rearrangements are important.
Thus, the function of a protein can be easily modified via alterations in repeat tract length [ 8, 10] and such modifications may have less drastic pleiotropic effects than other types of mutation [ 4].
We shall provide additional tools to analyse other types of mutation and to rank genes based on somatic mutation frequencies, aggregated P-values of CHASM or VEST scores, ratios of truncating to non-truncating mutations and counts of recurrently mutated positions.
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However, in addition to the desired precision base substitution, other types of mutations such as indel and proximal-site deamination are often generated.
Other types of mutations can even generate entirely new genes from previously noncoding DNA.
Thus other types of mutations such as translationally silent ESE mutations may easily be missed.
Other types of mutations have not been described in humans and few coding variants have been deposited into genomic databases.
Other types of mutations, such as hypervariable expanded simple tandem repeat (ESTR), have been used to reveal male germ line de novo mutations.
The publish-subscribe model could easily be extended to address other types of mutations, such as gain or loss of binding sites in regulatory regions, gene duplication and divergence [13], or whole genome duplication.
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