Results 21 to 30 of about 9,562,225 (293)

ATTfold: RNA Secondary Structure Prediction With Pseudoknots Based on Attention Mechanism

Frontiers in Genetics, 2020
Accurate RNA secondary structure information is the cornerstone of gene function research and RNA tertiary structure prediction. However, most traditional RNA secondary structure prediction algorithms are based on the dynamic programming (DP) algorithm ...
Yili Wang, Yili Wang, Yuanning Liu, Yuanning Liu, Shuo Wang, Shuo Wang, Zhen Liu, Zhen Liu, Zhen Liu, Yubing Gao, Yubing Gao, Hao Zhang, Hao Zhang, Liyan Dong, Liyan Dong   +14 more
doaj   +1 more source

Prediction of RNA Secondary Structure Including Kissing Hairpin Motifs [PDF]

, 2010
Theis C, Janssen S, Giegerich R. Prediction of RNA Secondary Structure Including Kissing Hairpin Motifs. In: Moulton V, Singh M, eds. Algorithms in Bioinformatics. 10th international workshop (WABI 2010), proceedings. Lecture Notes in Bioinformatics. Vol
Corinna Theis, Theis, Corinna, Moulton, Vincent, Singh, Mona, Stefan Janssen, Janssen, Stefan ; https://orcid.org/, Robert Giegerich, Giegerich, Robert   +7 more
core   +1 more source

RNA 3D Structure Prediction Using Coarse-Grained Models

Frontiers in Molecular Biosciences, 2021
The three-dimensional (3D) structures of Ribonucleic acid (RNA) molecules are essential to understanding their various and important biological functions. However, experimental determination of the atomic structures is laborious and technically difficult.
Jun Li, Shi-Jie Chen
doaj   +1 more source

Complete probabilistic analysis of RNA shapes [PDF]

, 2006
Voß B, Giegerich R, Rehmsmeier M. Complete probabilistic analysis of RNA shapes. BMC Biology. 2006;4(1): 5.Background: Soon after the first algorithms for RNA folding became available, it was recognised that the prediction of only one energetically ...
Marc Rehmsmeier, Voß, Björn, Rehmsmeier, Marc, Björn Voß, Rehmsmeier Marc, Robert Giegerich, Giegerich, Robert, Giegerich Robert, Voß Björn   +8 more
core   +1 more source

Predicting RNA Structure with Vfold [PDF]

, 2017
In order to carry out biological functions, RNA molecules must fold into specific three-dimensional (3D) structures. Current experimental methods to determine RNA 3D structures are expensive and time consuming. With the recent advances in computational biology, RNA structure prediction is becoming increasingly reliable.
Chenhan, Zhao, Xiaojun, Xu, Shi-Jie, Chen   +2 more
openaire   +2 more sources

SPOT-Seq-RNA: Predicting Protein–RNA Complex Structure and RNA-Binding Function by Fold Recognition and Binding Affinity Prediction [PDF]

, 2014
RNA-binding proteins (RBPs) play key roles in RNA metabolism and post-transcriptional regulation. Computational methods have been developed separately for prediction of RBPs and RNA-binding residues by machine-learning techniques and prediction of ...
Wang, Jihua, Zhou, Yaoqi, Yaoqi Zhou, Yuedong Yang, Huiying Zhao, Yang, Yuedong, Zhao, Huiying, Jihua Wang   +7 more
core   +1 more source

Abstract shapes of RNA [PDF]

, 2004
Giegerich R, Voss B, Rehmsmeier M. Abstract shapes of RNA. Nucleic Acids Research. 2004;32(16):4843-4851.The function of a non-protein-coding RNA is often determined by its structure.
Rehmsmeier, Marc, Voss, Björn, Giegerich, Robert, Giegerich, R.   +3 more
core   +1 more source

Physics-based RNA structure prediction. [PDF]

Biophys Rep, 2015
Despite the success of RNA secondary structure prediction for simple, short RNAs, the problem of predicting RNAs with long-range tertiary folds remains. Furthermore, RNA 3D structure prediction is hampered by the lack of the knowledge about the tertiary contacts and their thermodynamic parameters.
Xu X, Chen SJ.
europepmc   +4 more sources

RNAstructure: software for RNA secondary structure prediction and analysis

BMC Bioinformatics, 2010
Background To understand an RNA sequence's mechanism of action, the structure must be known. Furthermore, target RNA structure is an important consideration in the design of small interfering RNAs and antisense DNA oligonucleotides.
Mathews David H, Reuter Jessica S
doaj   +1 more source

Efficient Generation of RNA Secondary Structure Prediction Algorithm Under PAR Framework

Frontiers in Plant Science, 2022
Prediction of RNA secondary structure is an important part of bioinformatics genomics research. Mastering RNA secondary structure can help us to better analyze protein synthesis, cell differentiation, metabolism, and genetic processes and thus reveal the
Haihe Shi, Xiaoqian Jing
doaj   +1 more source