Author: Sperschneider, Jana; Datta, Amitava
Title: DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model Document date: 2010_1_31
ID: q26f8pv4_19
Snippet: In RNA structures, stems are often interrupted by bulge loops or internal loops. In the following, a stem interrupted by bulge loops or internal loops is denoted as s L i ( Figure 3 ). Naive construction of interrupted stems s L i from the stem dictionary D s would be inefficient due to a large number of possible stem combinations. Therefore, we employ a heuristic strategy for finding interrupted stems with low free energy......
Document: In RNA structures, stems are often interrupted by bulge loops or internal loops. In the following, a stem interrupted by bulge loops or internal loops is denoted as s L i ( Figure 3 ). Naive construction of interrupted stems s L i from the stem dictionary D s would be inefficient due to a large number of possible stem combinations. Therefore, we employ a heuristic strategy for finding interrupted stems with low free energy.
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