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Nucleic Acids Research|July 28, 2006
Nearest neighbor parameters for Watson-Crick complementary heteroduplexes formed between 2'-O-methyl RNA and RNA oligonucleotidesElzbieta Kierzek, David H Mathews, Anna Ciesielska, et al.Arxiv|March 31, 2025
Differentiable Folding for Nearest Neighbor Model OptimizationRyan K Krueger, Sharon Aviran, David H Mathews, et al.Nature Communications|February 19, 2026
SamplingDesign: RNA design via continuous optimization with coupled variables and Monte-Carlo samplingWei Yu Tang, Ning Dai, Tianshuo Zhou, et al.Nucleic Acids Research|May 7, 2022
Nearest neighbor rules for RNA helix folding thermodynamics: improved end effectsJeffrey Zuber, Susan J Schroeder, Hongying Sun, et al.Nucleic Acids Research|August 31, 2023
LinearCoFold and LinearCoPartition: linear-time algorithms for secondary structure prediction of interacting RNA moleculesHe Zhang, Sizhen Li, Ning Dai, et al.RNA (New York, N.Y.)|October 14, 2010
Computational approaches for RNA energy parameter estimationMirela Andronescu, Anne Condon, Holger H Hoos, et al.Journal of Chemical Theory and Computation|January 4, 2017
Revised RNA Dihedral Parameters for the Amber Force Field Improve RNA Molecular DynamicsAsaminew H Aytenfisu, Aleksandar Spasic, Alan Grossfield, et al.Plos One|June 16, 2015
Discovery of Novel ncRNA Sequences in Multiple Genome Alignments on the Basis of Conserved and Stable Secondary StructuresYinghan Fu, Zhenjiang Zech Xu, Zhi J Lu, et al.Biorxiv : the Preprint Server for Biology|January 13, 2025
40S ribosomal subunits scan mRNA for the start codon by one-dimensional diffusionHironao Wakabayashi, Mingyi Zhu, Elizabeth J Grayhack, et al.RNA (New York, N.Y.)|July 31, 2025
40S ribosomal subunits scan mRNA for the start codon by one-dimensional diffusionHironao Wakabayashi, Mingyi Zhu, Elizabeth J Grayhack, et al.Pageof 18