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Number Cited by Other Article(s)
1
Gormez Y, Aydin Z. IGPRED-MultiTask: A Deep Learning Model to Predict Protein Secondary Structure, Torsion Angles and Solvent Accessibility. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2023;20:1104-1113. [PMID: 35849663 DOI: 10.1109/tcbb.2022.3191395] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
2
Ismi DP, Pulungan R, Afiahayati. Deep learning for protein secondary structure prediction: Pre and post-AlphaFold. Comput Struct Biotechnol J 2022;20:6271-6286. [PMID: 36420164 PMCID: PMC9678802 DOI: 10.1016/j.csbj.2022.11.012] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 11/05/2022] [Accepted: 11/05/2022] [Indexed: 11/13/2022]  Open
3
Zhang H, Shan G, Yang B. Optimized Elastic Network Models With Direct Characterization of Inter-Residue Cooperativity for Protein Dynamics. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2022;19:1064-1074. [PMID: 32915744 DOI: 10.1109/tcbb.2020.3023147] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
4
Görmez Y, Sabzekar M, Aydın Z. IGPRED: Combination of convolutional neural and graph convolutional networks for protein secondary structure prediction. Proteins 2021;89:1277-1288. [PMID: 33993559 DOI: 10.1002/prot.26149] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Revised: 04/21/2021] [Accepted: 05/11/2021] [Indexed: 11/10/2022]
5
Hu J, Zheng LL, Bai YS, Zhang KW, Yu DJ, Zhang GJ. Accurate prediction of protein-ATP binding residues using position-specific frequency matrix. Anal Biochem 2021;626:114241. [PMID: 33971164 DOI: 10.1016/j.ab.2021.114241] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Revised: 04/27/2021] [Accepted: 05/01/2021] [Indexed: 10/21/2022]
6
Guo L, Jiang Q, Jin X, Liu L, Zhou W, Yao S, Wu M, Wang Y. A Deep Convolutional Neural Network to Improve the Prediction of Protein Secondary Structure. Curr Bioinform 2020. [DOI: 10.2174/1574893615666200120103050] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
7
Azginoglu N, Aydin Z, Celik M. Structural profile matrices for predicting structural properties of proteins. J Bioinform Comput Biol 2020;18:2050022. [PMID: 32649260 DOI: 10.1142/s0219720020500225] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
8
Protein Contact Map Prediction Based on ResNet and DenseNet. BIOMED RESEARCH INTERNATIONAL 2020;2020:7584968. [PMID: 32337273 PMCID: PMC7165324 DOI: 10.1155/2020/7584968] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Accepted: 03/05/2020] [Indexed: 11/18/2022]
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