Results 11 to 20 of about 1,038,708 (317)

Transformers in RNA structure prediction: A review [PDF]

Comput Struct Biotechnol J
The Transformer is a deep neural network based on the self-attention mechanism, designed to handle sequential data. Given its tremendous advantages in natural language processing, it has gained traction for other applications. As the primary structure of
Chaturvedi, Mayank, Rashid, Mahmood A, Paliwal, Kuldip K   +2 more
core   +2 more sources

Unveiling RNA structure-mediated regulations of RNA stability in wheat [PDF]

Nature Communications
Despite the critical role of mRNA stability in post-transcriptional gene regulation, research on this topic in wheat, a vital agricultural crop, remains unclear. Our study investigated the mRNA decay landscape of durum wheat (Triticum turgidum L.
Haidan Wu, Haopeng Yu, Yueying Zhang, Bibo Yang, Wenqing Sun, Lanying Ren, Yuchen Li, Qianqian Li, Bao Liu, Yiliang Ding, Huakun Zhang   +10 more
doaj   +2 more sources

RNA STRUCTURAL SEGMENTATION [PDF]

, 2009
We describe several dynamic programming segmentation algorithms to segment RNA secondary and tertiary structures into distinct domains. For this purpose, we consider fitness functions that variously depend on (i) base pairing probabilities in the Boltzmann low energy ensemble of structures, (ii) contact maps inferred from 3-dimensional structures, and (
Iván Dotú, W. A. Lorenz, Pascal Van Hentenryck, Peter Clote   +3 more
openaire   +2 more sources

An RNA Thermometer Activity of the West Nile Virus Genomic 3′-Terminal Stem-Loop Element Modulates Viral Replication Efficiency during Host Switching

Viruses, 2020
The 3′-terminal stem-loop (3′SL) of the RNA genome of the flavivirus West Nile (WNV) harbors, in its stem, one of the sequence elements that are required for genome cyclization.
Alexandra Meyer, Marie Freier, Tobias Schmidt, Katja Rostowski, Juliane Zwoch, Hauke Lilie, Sven-Erik Behrens, Susann Friedrich   +7 more
doaj   +1 more source

Cooperativity and Interdependency between RNA Structure and RNA–RNA Interactions

Non-Coding RNA, 2021
Complex RNA–RNA interactions are increasingly known to play key roles in numerous biological processes from gene expression control to ribonucleoprotein granule formation.
Ilias Skeparnias, Jinwei Zhang
doaj   +1 more source

RNA structure

Current Opinion in Structural Biology, 1998
New information concerning RNA structure is accumulating at an ever increasing rate-from short helices with mismatched bases of 5S rRNA and complex RNA aptamers. The importance of recurring structural motifs, ion binding, and the kinetics and energetics of folding in RNA structure and function is now being recognized and addressed.
Conn, Graeme L., Draper, David E.
openaire   +3 more sources

Crystal structure of Schmallenberg orthobunyavirus nucleoprotein-RNA complex reveals a novel RNA sequestration mechanism [PDF]

, 2013
Schmallenberg virus (SBV) is a newly emerged orthobunyavirus (family Bunyaviridae) that has caused severe disease in the offspring of farm animals across Europe.
Richard M. Elliott, Böttcher, Bettina, Li, P., Dong, H., Li, Ping, Dong, Changjiang, Dong, Haohao, Elliott, R., Boettcher, Bettina, Elliott, Richard M., Bottcher, B., Haohao Dong, Bettina Böttcher, Ping Li, Elliott, Richard M, Dong, C., Changjiang Dong   +16 more
core   +1 more source

Novel endoribonucleases as central players in various pathways of eukaryotic RNA metabolism [PDF]

, 2010
For a long time it has been assumed that the decay of RNA in eukaryotes is mainly carried out by exoribonucleases, which is in contrast to bacteria, where endoribonucleases are well documented to initiate RNA degradation.
Andrzej Dziembowski, Rafal Tomecki, Tomecki, Rafał, Dziembowski, Andrzej   +3 more
core   +1 more source

An ultra low-input method for global RNA structure probing uncovers Regnase-1-mediated regulation in macrophages

Fundamental Research, 2022
To enable diverse functions and precise regulation, an RNA sequence often folds into complex yet distinct structures in different cellular states. Probing RNA in its native environment is essential to uncovering RNA structures of biological contexts ...
Meiling Piao, Pan Li, Xiaomin Zeng, Xi-Wen Wang, Lan Kang, Jinsong Zhang, Yifan Wei, Shaojun Zhang, Lei Tang, Jianghui Zhu, Chun Kit Kwok, Xiaoyu Hu, Qiangfeng Cliff Zhang   +12 more
doaj   +1 more source

Molecular Characterization of Reduced Susceptibility to Biocides in Clinical Isolates of Acinetobacter baumannii

Frontiers in Microbiology, 2017
Active efflux is regarded as a common mechanism for antibiotic and biocide resistance. However, the role of many drug efflux pumps in biocide resistance in Acinetobacter baumannii remains unknown. Using biocide-resistant A.
Fei Lin, Fei Lin, Ying Xu, Yaowen Chang, Yaowen Chang, Chao Liu, Chao Liu, Xu Jia, Baodong Ling   +8 more
doaj   +1 more source