14 citations · 22 across the 14 of their papers we have counts for
15 papers
Making ends meet or just meeting at the ends? Assessing end-to-end distance in folded RNA sequences and other branched structures
Torin Greenwood, Christine Heitsch
Researchers have repeatedly found that the ends of an RNA sequence are significantly closer than expected for a random linear chain. However, we prove that the ends of a branched s…
An Efficient Algorithm for Exploring RNA Branching Conformations under the Nearest-Neighbor Thermodynamic Model
Svetlana Poznanović, Owen Cardwell, Christine Heitsch
Background: In the Nearest-Neighbor Thermodynamic Model, a standard approach for RNA secondary structure prediction, the energy of the multiloops is modeled using a linear entropic…
Can geometric combinatorics improve RNA branching predictions?
Svetlana Poznanović, Owen Cardwell, Christine Heitsch
Prior results for tRNA and 5S rRNA demonstrated that secondary structure prediction accuracy can be significantly improved by modifying the parameters in the multibranch loop entro…
RNAprofiling 2.0: Enhanced cluster analysis of structural ensembles
Forrest Hurley, Christine Heitsch
Understanding the base pairing of an RNA sequence provides insight into its molecular structure.By mining suboptimal sampling data, RNAprofiling 1.0 identifies the dominant helices…
Counting orbits under Kreweras complementation
Christine Heitsch
The Kreweras complementation map is an anti-isomorphism on the lattice of noncrossing partitions. We consider an analogous operation for plane trees motivated by the molecular biol…
On a barrier height problem for RNA branching
Christine Heitsch, Chi N. Y. Huynh, Greg Johnston
The branching of an RNA molecule is an important structural characteristic yet difficult to predict correctly, especially for longer sequences. Using plane trees as a combinatorial…