CPPred-sORF: Coding Potential Prediction of sORF based on non-AUG

BioRxiv : the Preprint Server for Biology
Xiaoxue TongShiyong Liu

Abstract

In recent years, researchers have discovered thousands of sORFs that can encode micropeptides, and more and more discoveries that non-AUG codons can be used as translation initiation sites for these micropeptides. On the basis of our previous tool CPPred, we develop CPPred-sORF by adding two features and using non-AUG as the starting codon, which makes a comprehensive evaluation of sORF. The database of CPPred-sORF are constructed by small coding RNA and lncRNA as positive and negative data, respectively. Compared to the small coding RNAs and small ncRNAs, lncRNAs and small coding RNAs are less distinguishable. This is because the longer the sequences, the easier to include open reading frames. We find that the sensitivity, specificity and MCC value of CPPred-sORF on the independent testing set can reach 88.22%, 88.84% and 0.768, respectively, which shows much better prediction performance than the other methods.

Related Concepts

Predator
Structure
Species
PYURF gene
Biological Evolution
Feedback - Evaluative Response Process

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Related Papers

Journal of Biomolecular Structure & Dynamics
Suhas Tikole, Ramasubbu Sankararamakrishnan
Molecular and Cellular Biology
Corrine Corrina R Hartford, Ashish Lal
© 2020 Meta ULC. All rights reserved