Related Experiment Video
Updated: Jan 17, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
Published on: December 9, 2022
TiRNA: a coarse-grained method with temperature and ion effects for RNA structure folding and prediction
Xunxun Wang1, Zouchenyu Zhou1, Shixiong Yu1
1Department of Physics and Key Laboratory of Artificial Micro & Nano-structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan 430072, China.
None:
RNAs play crucial roles in various important biological functions such as gene regulation and catalysis. The functions of RNAs are generally coupled to their structures as well as to the stability of the structure, which can strongly depend on ionic conditions. However, it is still a challenge to make reliable predictions for the structures and stability of RNAs in ion solutions. In this work, we developed a coarse-grained method involving temperature and ion effects for simulating RNA folding and three-dimensional (3D) structure prediction, named TiRNA. Extensive tests demonstrate that TiRNA can make successful predictions for 3D structures of RNAs, including pseudoknots and multi-way junctions, and for thermal stability of RNAs in ion solutions solely from sequences, as compared with the top existing methods. Moreover, TiRNA can also make reliable predictions for 3D structures and stability of RNAs in ion solutions based on inputting secondary structures.
Related Concept Videos
RNA Structure
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
RNA Structure
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...
Protein Folding Quality Check in the RER
Nucleic Acid Structure
DNA Structure
DNA...
¹H NMR of Conformationally Flexible Molecules: Variable-Temperature NMR
Protein Folding
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...

