Prediction of RNA secondary structure by free energy minimization
DH Mathews, DH Turner - Current opinion in structural biology, 2006 - Elsevier
RNA secondary structure is often predicted from sequence by free energy minimization.
Over the past two years, advances have been made in the estimation of folding free energy …
Over the past two years, advances have been made in the estimation of folding free energy …
Artificial intelligence in aptamer–target binding prediction
Aptamers are short single-stranded DNA, RNA, or synthetic Xeno nucleic acids (XNA)
molecules that can interact with corresponding targets with high affinity. Owing to their …
molecules that can interact with corresponding targets with high affinity. Owing to their …
Comprehensive in vivo secondary structure of the SARS-CoV-2 genome reveals novel regulatory motifs and mechanisms
Summary Severe-acute-respiratory-syndrome-related coronavirus 2 (SARS-CoV-2) is the
positive-sense RNA virus that causes coronavirus disease 2019 (COVID-19). The genome …
positive-sense RNA virus that causes coronavirus disease 2019 (COVID-19). The genome …
Determination of RNA structural diversity and its role in HIV-1 RNA splicing
Abstract Human immunodeficiency virus 1 (HIV-1) is a retrovirus with a ten-kilobase single-
stranded RNA genome. HIV-1 must express all of its gene products from a single primary …
stranded RNA genome. HIV-1 must express all of its gene products from a single primary …
ViennaRNA Package 2.0
R Lorenz, SH Bernhart… - Algorithms for molecular …, 2011 - Springer
Background Secondary structure forms an important intermediate level of description of
nucleic acids that encapsulates the dominating part of the folding energy, is often well …
nucleic acids that encapsulates the dominating part of the folding energy, is often well …
Diverse roles of MYB transcription factors in regulating secondary metabolite biosynthesis, shoot development, and stress responses in tea plants (Camellia sinensis)
Tea (Camellia sinensis) is concocted from tea plant shoot tips that produce catechins,
caffeine, theanine, and terpenoids, which collectively determine the rich flavors and health …
caffeine, theanine, and terpenoids, which collectively determine the rich flavors and health …
Sesquiterpene glucosylation mediated by glucosyltransferase UGT91Q2 is involved in the modulation of cold stress tolerance in tea plants
M Zhao, N Zhang, T Gao, J Jin, T Jing, J Wang… - New …, 2020 - Wiley Online Library
Plants produce and emit terpenes, including sesquiterpenes, during growth and
development, which serve different functions in plants. The sesquiterpene nerolidol has …
development, which serve different functions in plants. The sesquiterpene nerolidol has …
RNAstructure: software for RNA secondary structure prediction and analysis
JS Reuter, DH Mathews - BMC bioinformatics, 2010 - Springer
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 …
known. Furthermore, target RNA structure is an important consideration in the design of …
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure
DH Mathews, MD Disney, JL Childs… - Proceedings of the …, 2004 - National Acad Sciences
A dynamic programming algorithm for prediction of RNA secondary structure has been
revised to accommodate folding constraints determined by chemical modification and to …
revised to accommodate folding constraints determined by chemical modification and to …
RNAstructure: web servers for RNA secondary structure prediction and analysis
S Bellaousov, JS Reuter, MG Seetin… - Nucleic acids …, 2013 - academic.oup.com
RNAstructure is a software package for RNA secondary structure prediction and analysis.
This contribution describes a new set of web servers to provide its functionality. The web …
This contribution describes a new set of web servers to provide its functionality. The web …