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For: Meher PK, Sahu TK, Rao AR, Wahi SD. Identification of donor splice sites using support vector machine: a computational approach based on positional, compositional and dependency features. Algorithms Mol Biol 2016;11:16. [PMID: 27252772 PMCID: PMC4888255 DOI: 10.1186/s13015-016-0078-4] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2015] [Accepted: 05/17/2016] [Indexed: 11/16/2022]  Open
Number Cited by Other Article(s)
1
Hamouda E, Tarek M. A hybrid approach of ensemble learning and grey wolf optimizer for DNA splice junction prediction. PLoS One 2024;19:e0310698. [PMID: 39312561 PMCID: PMC11419377 DOI: 10.1371/journal.pone.0310698] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Accepted: 09/05/2024] [Indexed: 09/25/2024]  Open
2
Zabardast A, Tamer EG, Son YA, Yılmaz A. An automated framework for evaluation of deep learning models for splice site predictions. Sci Rep 2023;13:10221. [PMID: 37353532 PMCID: PMC10290104 DOI: 10.1038/s41598-023-34795-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2022] [Accepted: 05/08/2023] [Indexed: 06/25/2023]  Open
3
Das L, Das JK, Mohapatra S, Nanda S. DNA numerical encoding schemes for exon prediction: a recent history. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2021;40:985-1017. [PMID: 34455915 DOI: 10.1080/15257770.2021.1966797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
4
Moosa S, Amira PA, Boughorbel DS. DASSI: differential architecture search for splice identification from DNA sequences. BioData Min 2021;14:15. [PMID: 33588916 PMCID: PMC7885202 DOI: 10.1186/s13040-021-00237-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2020] [Accepted: 01/05/2021] [Indexed: 11/28/2022]  Open
5
Amilpur S, Bhukya R. EDeepSSP: Explainable deep neural networks for exact splice sites prediction. J Bioinform Comput Biol 2020;18:2050024. [PMID: 32696716 DOI: 10.1142/s0219720020500249] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
6
Thanapattheerakul T, Engchuan W, Chan JH. Predicting the effect of variants on splicing using Convolutional Neural Networks. PeerJ 2020;8:e9470. [PMID: 32704450 PMCID: PMC7346860 DOI: 10.7717/peerj.9470] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 06/11/2020] [Indexed: 11/23/2022]  Open
7
Albaradei S, Magana-Mora A, Thafar M, Uludag M, Bajic VB, Gojobori T, Essack M, Jankovic BR. Splice2Deep: An ensemble of deep convolutional neural networks for improved splice site prediction in genomic DNA. Gene 2020;763S:100035. [PMID: 32550561 PMCID: PMC7285987 DOI: 10.1016/j.gene.2020.100035] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Accepted: 05/06/2020] [Indexed: 12/21/2022]
8
Splice sites detection using chaos game representation and neural network. Genomics 2019;112:1847-1852. [PMID: 31704313 DOI: 10.1016/j.ygeno.2019.10.018] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2018] [Revised: 03/18/2019] [Accepted: 10/29/2019] [Indexed: 11/23/2022]
9
Meher PK, Sahu TK, Gahoi S, Satpathy S, Rao AR. Evaluating the performance of sequence encoding schemes and machine learning methods for splice sites recognition. Gene 2019;705:113-126. [PMID: 31009682 DOI: 10.1016/j.gene.2019.04.047] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Revised: 03/27/2019] [Accepted: 04/17/2019] [Indexed: 02/02/2023]
10
Naito T. Human Splice-Site Prediction with Deep Neural Networks. J Comput Biol 2018;25:954-961. [PMID: 29668310 DOI: 10.1089/cmb.2018.0041] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
11
Xu ZC, Wang P, Qiu WR, Xiao X. iSS-PC: Identifying Splicing Sites via Physical-Chemical Properties Using Deep Sparse Auto-Encoder. Sci Rep 2017;7:8222. [PMID: 28811565 PMCID: PMC5557945 DOI: 10.1038/s41598-017-08523-8] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Accepted: 07/10/2017] [Indexed: 12/13/2022]  Open
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