The challenge of RNA branching prediction: a parametric analysis of multiloop initiation under thermodynamic optimization

Author:

Poznanović Svetlana,Barrera-Cruz Fidel,Kirkpatrick Anna,Ielusic Matthew,Heitsch Christine

Publisher

Elsevier BV

Subject

Structural Biology

Reference34 articles.

1. On the structure of RNA branching polytopes;Barrera-Cruz;SIAM J. Appl. Algebra Geometry,2018

2. The Comparative RNA Web (CRW) Site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs;Cannone;BMC Bioinf.,2002

3. Structural RNA has lower folding energy than random RNA of the same dinucleotide frequency;Clote;Bioinformatics,2005

4. Thermodynamics of three-way multibranch loops in RNA;Diamond;Biochemistry,2001

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1. DERNA Enables Pareto Optimal RNA Design;Journal of Computational Biology;2024-03-01

2. Scaling properties of RNA as a randomly branching polymer;The Journal of Chemical Physics;2023-06-15

3. StemP: A fast and deterministic Stem-graph approach for RNA secondary structure prediction;IEEE/ACM Transactions on Computational Biology and Bioinformatics;2023

4. Viral RNA as a Branched Polymer;Physical Virology;2023

5. Improving RNA Branching Predictions: Advances and Limitations;Genes;2021-03-25

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