2OM-Pred: prediction of 2-<i>O</i>-methylation sites in ribonucleic acid using diverse classifiers

2-O-methylation (2OM) is a vital post-transcriptional modification which is formed by a functional group through the attachment of a methyl (-CH3) group to the second position of an aromatic ring hydroxyl group (-OH). It plays an active part in RNA physical configuration stability and the way different RNA molecules interrelate. Further, this modification plays a pivotal role in changing the epigenetic regulation of cellular processes. Previous approaches like mass spectrometry could not fully enhance the identification of RNA-modified sites. Sequence data were useful in the development of measures that meant the use of computationally intelligent system to identify 2OM sites quickly. This research proposed a new novel method of feature extraction and generation from the available sequences, and the feature dimensionality reduction has been done through the incorporation of statistical moments. The final feature vectors were developed and used to train prediction models. The assessment of prediction models was carried out through independent set tests and k-fold cross-validation. Through rigorous testing, the bagging ensemble model outperformed and revealed optimal accuracy scores. A publicly accessible web-based application has been developed which can be accessed via https://2om-pred-webapp.streamlit.app/.

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Publication Details

Journal
Briefings in Bioinformatics
Published
2025-05-01
DOI
https://doi.org/10.1093/bib/bbaf282
Citations
1
Primary Topic
Machine Learning in Bioinformatics
Type
article
Field-Weighted Citation Impact
0.81

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article

2OM-Pred: prediction of 2-O-methylation sites in ribonucleic acid using diverse classifiers

Muhammad Taseer Suleman, Anas Bilal, Abdulkareem Alzahrani, Khalid Almohammadi et al.
1 citations
Briefings in Bioinformatics
Machine Learning in Bioinformatics
0.81
article

2OM-Pred: prediction of 2-O-methylation sites in ribonucleic acid using diverse classifiers

Muhammad Taseer Suleman, Anas Bilal, Abdulkareem Alzahrani, Khalid Almohammadi, Xiaowen Liu
article en
1 citations

Abstract

2-O-methylation (2OM) is a vital post-transcriptional modification which is formed by a functional group through the attachment of a methyl (-CH3) group to the second position of an aromatic ring hydroxyl group (-OH). It plays an active part in RNA physical configuration stability and the way different RNA molecules interrelate. Further, this modification plays a pivotal role in changing the epigenetic regulation of cellular processes. Previous approaches like mass spectrometry could not fully enhance the identification of RNA-modified sites. Sequence data were useful in the development of measures that meant the use of computationally intelligent system to identify 2OM sites quickly. This research proposed a new novel method of feature extraction and generation from the available sequences, and the feature dimensionality reduction has been done through the incorporation of statistical moments. The final feature vectors were developed and used to train prediction models. The assessment of prediction models was carried out through independent set tests and k-fold cross-validation. Through rigorous testing, the bagging ensemble model outperformed and revealed optimal accuracy scores. A publicly accessible web-based application has been developed which can be accessed via https://2om-pred-webapp.streamlit.app/.

Briefings in BioinformaticsVol. 26(3)
Hainan Normal University (CN), Al Baha University (SA), Bahria University (PK), University of Tabuk (SA)
National Natural Science Foundation of China
Openalex Percentile: Top 27%
Machine Learning in Bioinformatics
0.81
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2OM-Pred: prediction of 2-<i>O</i>-methylation sites in ribonucleic acid using diverse classifiers — Muhammad Taseer Suleman, Anas Bilal, et al. · Briefings in Bioinformatics (2025) | TGRS Research Map | TGRS