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RNA folding

RNA secondary structure prediction with pseudoknots: Contribution of algorithm versus energy model

Hosna Jabbari, Ian Wark, Carlo Montemagno

Comparison of protocols and RNA carriers for plasma miRNA isolation. Unraveling RNA carrier influence on miRNA isolation

Luis A. Ramón-Núñez, Laura Martos, [ ... ], Silvia Navarro

Simulating the origins of life: The dual role of RNA replicases as an obstacle to evolution

Natalia Szostak, Jaroslaw Synak, [ ... ], Jacek Blazewicz

Molecular simulations and Markov state modeling reveal the structural diversity and dynamics of a theophylline-binding RNA aptamer in its unbound state

Becka M. Warfield, Peter C. Anderson

The impact of RNA secondary structure on read start locations on the Illumina sequencing platform

Adam Price, Jaishree Garhyan, Cynthia Gibas

Changes in the Plasticity of HIV-1 Nef RNA during the Evolution of the North American Epidemic

Amirhossein Manzourolajdad, Mileidy Gonzalez, John L. Spouge

VfoldCPX Server: Predicting RNA-RNA Complex Structure and Stability

Xiaojun Xu, Shi-Jie Chen

Network Properties of the Ensemble of RNA Structures

Peter Clote, Amir Bayegan

GARN: Sampling RNA 3D Structure Space with Game Theory and Knowledge-Based Scoring Strategies

Mélanie Boudard, Julie Bernauer, [ ... ], Alain Denise

An Efficient Minimum Free Energy Structure-Based Search Method for Riboswitch Identification Based on Inverse RNA Folding

Matan Drory Retwitzer, Ilona Kifer, [ ... ], Danny Barash

Free Energy Landscape and Multiple Folding Pathways of an H-Type RNA Pseudoknot

Yunqiang Bian, Jian Zhang, [ ... ], Wei Wang

In Silico Screening Based on Predictive Algorithms as a Design Tool for Exon Skipping Oligonucleotides in Duchenne Muscular Dystrophy

Yusuke Echigoya, Vincent Mouly, [ ... ], William Duddy

TBI Server: A Web Server for Predicting Ion Effects in RNA Folding

Yuhong Zhu, Zhaojian He, Shi-Jie Chen

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