PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction
MicroRNAs (miRNAs) are a kind of short non-coding ribonucleic acid molecules that can regulate gene expression. The computational identification of plant miRNAs is of great significance to understanding biological functions. In our previous studies, we have put firstly forward and further developed...
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| Format: | Article |
| Language: | English |
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MDPI AG
2021-08-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/12/8/1280 |
| _version_ | 1797523789516374016 |
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| author | Dashuai Fan Yuangen Yao Ming Yi |
| author_facet | Dashuai Fan Yuangen Yao Ming Yi |
| author_sort | Dashuai Fan |
| collection | DOAJ |
| description | MicroRNAs (miRNAs) are a kind of short non-coding ribonucleic acid molecules that can regulate gene expression. The computational identification of plant miRNAs is of great significance to understanding biological functions. In our previous studies, we have put firstly forward and further developed a set of knowledge-based energy features to construct two plant pre-miRNA prediction tools (plantMirP and riceMirP). However, these two tools cannot be used for miRNA prediction from NGS (Next-Generation Sequencing) data. In addition, for further improving the prediction performance and accessibility, plantMirP2 has been developed. Based on the latest dataset, plantMirP2 achieves a promising performance: 0.9968 (Area Under Curve, AUC), 0.9754 (accuracy), 0.9675 (sensitivity) and 0.9876 (specificity). Additionally, the comparisons with other plant pre-miRNA tools show that plantMirP2 performs better. Finally, the webserver and stand-alone version of plantMirP2 are available. |
| first_indexed | 2024-03-10T08:47:07Z |
| format | Article |
| id | doaj.art-b5a0760e542f459ba7a1626b97e61c00 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-10T08:47:07Z |
| publishDate | 2021-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-b5a0760e542f459ba7a1626b97e61c002023-11-22T07:47:07ZengMDPI AGGenes2073-44252021-08-01128128010.3390/genes12081280PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA PredictionDashuai Fan0Yuangen Yao1Ming Yi2School of Mathematics and Physics, China University of Geosciences, Wuhan 430074, ChinaDepartment of Physics, College of Science, Huazhong Agricultural University, Wuhan 430070, ChinaSchool of Mathematics and Physics, China University of Geosciences, Wuhan 430074, ChinaMicroRNAs (miRNAs) are a kind of short non-coding ribonucleic acid molecules that can regulate gene expression. The computational identification of plant miRNAs is of great significance to understanding biological functions. In our previous studies, we have put firstly forward and further developed a set of knowledge-based energy features to construct two plant pre-miRNA prediction tools (plantMirP and riceMirP). However, these two tools cannot be used for miRNA prediction from NGS (Next-Generation Sequencing) data. In addition, for further improving the prediction performance and accessibility, plantMirP2 has been developed. Based on the latest dataset, plantMirP2 achieves a promising performance: 0.9968 (Area Under Curve, AUC), 0.9754 (accuracy), 0.9675 (sensitivity) and 0.9876 (specificity). Additionally, the comparisons with other plant pre-miRNA tools show that plantMirP2 performs better. Finally, the webserver and stand-alone version of plantMirP2 are available.https://www.mdpi.com/2073-4425/12/8/1280microRNApre-miRNAsupport vector machineknowledge-based energy feature |
| spellingShingle | Dashuai Fan Yuangen Yao Ming Yi PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction Genes microRNA pre-miRNA support vector machine knowledge-based energy feature |
| title | PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction |
| title_full | PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction |
| title_fullStr | PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction |
| title_full_unstemmed | PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction |
| title_short | PlantMirP2: An Accurate, Fast and Easy-To-Use Program for Plant Pre-miRNA and miRNA Prediction |
| title_sort | plantmirp2 an accurate fast and easy to use program for plant pre mirna and mirna prediction |
| topic | microRNA pre-miRNA support vector machine knowledge-based energy feature |
| url | https://www.mdpi.com/2073-4425/12/8/1280 |
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