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i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings
5-Hydroxymethylcytosine (5hmC), one of the most important RNA modifications, plays an important role in many biological processes. Accurately identifying RNA modification sites helps understand the function of RNA modification. In this work, we propose a computational method for identifying 5hmC-mod...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2022
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9110757/ https://www.ncbi.nlm.nih.gov/pubmed/35591855 http://dx.doi.org/10.3389/fgene.2022.896925 |
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author | Liu, Hang-Yu Du, Pu-Feng |
author_facet | Liu, Hang-Yu Du, Pu-Feng |
author_sort | Liu, Hang-Yu |
collection | PubMed |
description | 5-Hydroxymethylcytosine (5hmC), one of the most important RNA modifications, plays an important role in many biological processes. Accurately identifying RNA modification sites helps understand the function of RNA modification. In this work, we propose a computational method for identifying 5hmC-modified regions using machine learning algorithms. We applied a sequence feature embedding method based on the dna2vec algorithm to represent the RNA sequence. The results showed that the performance of our model is better that of than state-of-art methods. All dataset and source codes used in this study are available at: https://github.com/liu-h-y/5hmC_model. |
format | Online Article Text |
id | pubmed-9110757 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-91107572022-05-18 i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings Liu, Hang-Yu Du, Pu-Feng Front Genet Genetics 5-Hydroxymethylcytosine (5hmC), one of the most important RNA modifications, plays an important role in many biological processes. Accurately identifying RNA modification sites helps understand the function of RNA modification. In this work, we propose a computational method for identifying 5hmC-modified regions using machine learning algorithms. We applied a sequence feature embedding method based on the dna2vec algorithm to represent the RNA sequence. The results showed that the performance of our model is better that of than state-of-art methods. All dataset and source codes used in this study are available at: https://github.com/liu-h-y/5hmC_model. Frontiers Media S.A. 2022-05-03 /pmc/articles/PMC9110757/ /pubmed/35591855 http://dx.doi.org/10.3389/fgene.2022.896925 Text en Copyright © 2022 Liu and Du. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Liu, Hang-Yu Du, Pu-Feng i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title | i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title_full | i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title_fullStr | i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title_full_unstemmed | i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title_short | i5hmCVec: Identifying 5-Hydroxymethylcytosine Sites of Drosophila RNA Using Sequence Feature Embeddings |
title_sort | i5hmcvec: identifying 5-hydroxymethylcytosine sites of drosophila rna using sequence feature embeddings |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9110757/ https://www.ncbi.nlm.nih.gov/pubmed/35591855 http://dx.doi.org/10.3389/fgene.2022.896925 |
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