AI Article Synopsis
- * The analysis reveals distinct AU content distributions and similar minimum folding energy indices among most ncRNA classes, with notable exceptions for pre-miRNAs and lncRNAs, which show different trends.
- * An eight-classifier model was developed to differentiate these ncRNA classes, with support vector machines achieving the highest accuracy of about 96%, leading to the creation of a web server called NCodR for easy access to this classification tool.
Article Abstract
Non-coding RNAs (ncRNAs) are major players in the regulation of gene expression. This study analyses seven classes of ncRNAs in plants using sequence and secondary structure-based RNA folding measures. We observe distinct regions in the distribution of AU content along with overlapping regions for different ncRNA classes. Additionally, we find similar averages for minimum folding energy index across various ncRNAs classes except for pre-miRNAs and lncRNAs. Various RNA folding measures show similar trends among the different ncRNA classes except for pre-miRNAs and lncRNAs. We observe different k-mer repeat signatures of length three among various ncRNA classes. However, in pre-miRs and lncRNAs, a diffuse pattern of k-mers is observed. Using these attributes, we train eight different classifiers to discriminate various ncRNA classes in plants. Support vector machines employing radial basis function show the highest accuracy (average F1 of ~96%) in discriminating ncRNAs, and the classifier is implemented as a web server, NCodR.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10095871 | PMC |
| http://dx.doi.org/10.1017/qpb.2022.18 | DOI Listing |
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