A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit <a rel="external noopener" href="https://www.biorxiv.org/content/biorxiv/early/2021/01/28/2020.08.17.254896.full.pdf">the original URL</a>. The file type is <code>application/pdf</code>.
UFold: Fast and Accurate RNA Secondary Structure Prediction with Deep Learning
[article]
<span title="2020-08-18">2020</span>
<i title="Cold Spring Harbor Laboratory">
bioRxiv
</i>
<span class="release-stage" >pre-print</span>
Preserved Fulltext
For many RNA molecules, the secondary structure is essential for the correction function of the RNA. Predicting RNA secondary structure from nucleotide sequences is a long-standing problem in genomics, but the prediction performance has reached a plateau over time. Traditional RNA secondary structure prediction algorithms are primarily based on thermodynamic models through free energy minimization. Here we propose a deep learning-based method, called UFold, for RNA secondary structure
<span class="external-identifiers">
<a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.08.17.254896">doi:10.1101/2020.08.17.254896</a>
<a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gpd5c43cxvbv7norkgkygrwm6e">fatcat:gpd5c43cxvbv7norkgkygrwm6e</a>
</span>
more »
... , trained directly on annotated data without any thermodynamic assumptions. UFold improves substantially upon previous models, with approximately 31% improvement over traditional thermodynamic models and 24.5% improvement over other learning-based methods. It achieves an F1 score of 0.96 on base pair prediction accuracy. An online web server running UFold is publicly available at http://ufold.ics.uci.edu.
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210717082022/https://www.biorxiv.org/content/biorxiv/early/2021/01/28/2020.08.17.254896.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext">
<button class="ui simple right pointing dropdown compact black labeled icon button serp-button">
<i class="icon ia-icon"></i>
Web Archive
[PDF]
<div class="menu fulltext-thumbnail">
<img src="https://blobs.fatcat.wiki/thumbnail/pdf/ac/33/ac33aa1ca517079b28f5821308bf0fe1cdd24af0.180px.jpg" alt="fulltext thumbnail" loading="lazy">
</div>
</button>
</a>
<a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.08.17.254896">
<button class="ui left aligned compact blue labeled icon button serp-button">
<i class="external alternate icon"></i>
biorxiv.org
</button>
</a>