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Three equally optimal edit paths were found between the ML trees derived from the two segments.
An optimal edit script from s to t is one which has a minimum cost.
The length of the optimal edit path is the minimal SPR distance or edit distance between the two trees.
Observation 6. Let E S = u 0, u 1, …, u r be a shortest optimal edit script from u to u r.
Lemma 9. Let E S = u 0, u 1, …, u r be a shortest optimal edit script from u to u r.
The edit distance from s to t, denoted by ed (s, t), is the cost of an optimal edit script from s to t.
Similar(50)
We therefore refer to genes that meet this cutoff as "gene dependencies". Screens performed in cell clones selected for optimal editing identified most gene dependencies (Fig. 1c and below).
One cell-based study showed that optimal editing is achieved when the ssODN template is centered around the Cas9 cut site, and the desired edit site is located within 10 bp (Yang et al. 2013b).
The heights score is a (non-optimal) edit distance, where the score is the total sum of a sequence of moves which transform one tree into the other.
(The latter strategy would be optimal for editing of the first gene in an operon because it would avoid polar effects on downstream genes).
With respect to RNA editing, the similarities within and between individuals leads us to conclude that this post-transcriptional process is under heavy regulatory influence to maintain an optimal degree of editing for normal biological function.
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