دورية أكاديمية
Identification of D Modification Sites Using a Random Forest Model Based on Nucleotide Chemical Properties
| العنوان: | Identification of D Modification Sites Using a Random Forest Model Based on Nucleotide Chemical Properties |
|---|---|
| المؤلفون: | Huan Zhu, Chun-Yan Ao, Yi-Jie Ding, Hong-Xia Hao, Liang Yu |
| المصدر: | International Journal of Molecular Sciences, Vol 23, Iss 6, p 3044 (2022) |
| بيانات النشر: | MDPI AG, 2022. |
| سنة النشر: | 2022 |
| المجموعة: | LCC:Biology (General) LCC:Chemistry |
| مصطلحات موضوعية: | dihydrouridine, random forest, nucleotide chemical properties, prediction, oversample, Biology (General), QH301-705.5, Chemistry, QD1-999 |
| الوصف: | Dihydrouridine (D) is an abundant post-transcriptional modification present in transfer RNA from eukaryotes, bacteria, and archaea. D has contributed to treatments for cancerous diseases. Therefore, the precise detection of D modification sites can enable further understanding of its functional roles. Traditional experimental techniques to identify D are laborious and time-consuming. In addition, there are few computational tools for such analysis. In this study, we utilized eleven sequence-derived feature extraction methods and implemented five popular machine algorithms to identify an optimal model. During data preprocessing, data were partitioned for training and testing. Oversampling was also adopted to reduce the effect of the imbalance between positive and negative samples. The best-performing model was obtained through a combination of random forest and nucleotide chemical property modeling. The optimized model presented high sensitivity and specificity values of 0.9688 and 0.9706 in independent tests, respectively. Our proposed model surpassed published tools in independent tests. Furthermore, a series of validations across several aspects was conducted in order to demonstrate the robustness and reliability of our model. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1422-0067 1661-6596 |
| Relation: | https://www.mdpi.com/1422-0067/23/6/3044; https://doaj.org/toc/1661-6596; https://doaj.org/toc/1422-0067 |
| DOI: | 10.3390/ijms23063044 |
| URL الوصول: | https://doaj.org/article/049d1eb96de041688742650d94292743 |
| رقم الأكسشن: | edsdoj.049d1eb96de041688742650d94292743 |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 14220067 16616596 |
|---|---|
| DOI: | 10.3390/ijms23063044 |