A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit <a rel="external noopener" href="https://mouseion.jax.org/cgi/viewcontent.cgi?article=1181&context=stfb2019">the original URL</a>. The file type is <code>application/pdf</code>.
PRAS: Predicting functional targets of RNA binding proteins based on CLIP-seq peaks
<span title="2019-08-19">2019</span>
<i title="Public Library of Science (PLoS)">
<a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ch57atmlprauhhbqdf7x4ytejm" style="color: black;">PLoS Computational Biology</a>
</i>
Preserved Fulltext
RNA-protein interaction plays important roles in post-transcriptional regulation. Recent advancements in cross-linking and immunoprecipitation followed by sequencing (CLIP-seq) technologies make it possible to detect the binding peaks of a given RNA binding protein (RBP) at transcriptome scale. However, it is still challenging to predict the functional consequences of RBP binding peaks. In this study, we propose the Protein-RNA Association Strength (PRAS), which integrates the intensities and
<span class="external-identifiers">
<a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1007227">doi:10.1371/journal.pcbi.1007227</a>
<a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31425505">pmid:31425505</a>
<a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6716675/">pmcid:PMC6716675</a>
<a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/evvagihknvfnnfddpsvh6vf2ii">fatcat:evvagihknvfnnfddpsvh6vf2ii</a>
</span>
more »
... sitions of the binding peaks of RBPs for functional mRNA targets prediction. We illustrate the superiority of PRAS over existing approaches on predicting the functional targets of two related but divergent CELF (CUGBP, ELAV-like factor) RBPs in mouse brain and muscle. We also demonstrate the potential of PRAS for wide adoption by applying it to the enhanced CLIP-seq (eCLIP) datasets of 37 RNA decay related RBPs in two human cell lines. PRAS can be utilized to investigate any RBPs with available CLIP-seq peaks. PRAS is freely available at http://ouyanglab.jax.org/pras/.
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200306223020/https://mouseion.jax.org/cgi/viewcontent.cgi?article=1181&context=stfb2019" 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/18/22/182251bcca922041c68ac4c4374ed70317d30ee0.180px.jpg" alt="fulltext thumbnail" loading="lazy">
</div>
</button>
</a>
<a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1007227">
<button class="ui left aligned compact blue labeled icon button serp-button">
<i class="unlock alternate icon" style="background-color: #fb971f;"></i>
plos.org
</button>
</a>
<a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6716675" title="pubmed link">
<button class="ui compact blue labeled icon button serp-button">
<i class="file alternate outline icon"></i>
pubmed.gov
</button>
</a>