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For: Lin W, Xu D. Imbalanced multi-label learning for identifying antimicrobial peptides and their functional types. Bioinformatics 2016;32:3745-3752. [PMID: 27565585 PMCID: PMC5167070 DOI: 10.1093/bioinformatics/btw560] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2016] [Revised: 08/07/2016] [Accepted: 08/22/2016] [Indexed: 01/06/2023]  Open
Number Cited by Other Article(s)
51
Beyene SS, Ling T, Ristevski B, Chen M. A novel riboswitch classification based on imbalanced sequences achieved by machine learning. PLoS Comput Biol 2020;16:e1007760. [PMID: 32687488 PMCID: PMC7392346 DOI: 10.1371/journal.pcbi.1007760] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2020] [Revised: 07/30/2020] [Accepted: 05/13/2020] [Indexed: 11/24/2022]  Open
52
Qutb AM, Wei F, Dong W. Prediction and Characterization of Cationic Arginine-Rich Plant Antimicrobial Peptide SM-985 From Teosinte (Zea mays ssp. mexicana). Front Microbiol 2020;11:1353. [PMID: 32636825 PMCID: PMC7318549 DOI: 10.3389/fmicb.2020.01353] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2020] [Accepted: 05/26/2020] [Indexed: 12/17/2022]  Open
53
Beltran JA, Del Rio G, Brizuela CA. An automatic representation of peptides for effective antimicrobial activity classification. Comput Struct Biotechnol J 2020;18:455-463. [PMID: 32180904 PMCID: PMC7063200 DOI: 10.1016/j.csbj.2020.02.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Revised: 01/30/2020] [Accepted: 02/01/2020] [Indexed: 01/19/2023]  Open
54
Characterization and Identification of Natural Antimicrobial Peptides on Different Organisms. Int J Mol Sci 2020;21:ijms21030986. [PMID: 32024233 PMCID: PMC7038045 DOI: 10.3390/ijms21030986] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 01/18/2020] [Accepted: 01/30/2020] [Indexed: 12/30/2022]  Open
55
Settouti N, Douibi K, Bechar MEA, Daho MEH, Saidi M. Semi-Supervised learning with Collaborative Bagged Multi-label K-Nearest-Neighbors. OPEN COMPUTER SCIENCE 2019. [DOI: 10.1515/comp-2019-0017] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
56
Zuo Y, Chang Y, Huang S, Zheng L, Yang L, Cao G. iDEF-PseRAAC: Identifying the Defensin Peptide by Using Reduced Amino Acid Composition Descriptor. Evol Bioinform Online 2019;15:1176934319867088. [PMID: 31391777 PMCID: PMC6669840 DOI: 10.1177/1176934319867088] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2019] [Accepted: 07/08/2019] [Indexed: 11/18/2022]  Open
57
Chung CR, Kuo TR, Wu LC, Lee TY, Horng JT. Characterization and identification of antimicrobial peptides with different functional activities. Brief Bioinform 2019;21:bbz043. [PMID: 31155657 DOI: 10.1093/bib/bbz043] [Citation(s) in RCA: 96] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2019] [Revised: 03/20/2019] [Accepted: 03/20/2019] [Indexed: 02/28/2024]  Open
58
Gull S, Shamim N, Minhas F. AMAP: Hierarchical multi-label prediction of biologically active and antimicrobial peptides. Comput Biol Med 2019;107:172-181. [DOI: 10.1016/j.compbiomed.2019.02.018] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2018] [Revised: 02/17/2019] [Accepted: 02/20/2019] [Indexed: 12/12/2022]
59
Ayala‐Ruano S, Santander‐Gordón D, Tejera E, Perez‐Castillo Y, Armijos-Jaramillo V. A putative antimicrobial peptide from Hymenoptera in the megaplasmid pSCL4 of Streptomyces clavuligerus ATCC 27064 reveals a singular case of horizontal gene transfer with potential applications. Ecol Evol 2019;9:2602-2614. [PMID: 30891203 PMCID: PMC6406012 DOI: 10.1002/ece3.4924] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Revised: 12/31/2018] [Accepted: 01/02/2019] [Indexed: 11/06/2022]  Open
60
Mirza B, Wang W, Wang J, Choi H, Chung NC, Ping P. Machine Learning and Integrative Analysis of Biomedical Big Data. Genes (Basel) 2019;10:E87. [PMID: 30696086 PMCID: PMC6410075 DOI: 10.3390/genes10020087] [Citation(s) in RCA: 182] [Impact Index Per Article: 30.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2018] [Revised: 01/08/2019] [Accepted: 01/21/2019] [Indexed: 12/11/2022]  Open
61
Vishnepolsky B, Pirtskhalava M. Comment on: ‘Empirical comparison of web-based antimicrobial peptide prediction tools’. Bioinformatics 2018;35:2692-2694. [DOI: 10.1093/bioinformatics/bty1023] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Revised: 03/05/2018] [Accepted: 12/13/2018] [Indexed: 11/12/2022]  Open
62
Kalmykova SD, Arapidi GP, Urban AS, Osetrova MS, Gordeeva VD, Ivanov VT, Govorun VM. In Silico Analysis of Peptide Potential Biological Functions. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2018. [DOI: 10.1134/s106816201804009x] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
63
Liu S, Bao J, Lao X, Zheng H. Novel 3D Structure Based Model for Activity Prediction and Design of Antimicrobial Peptides. Sci Rep 2018;8:11189. [PMID: 30046138 PMCID: PMC6060096 DOI: 10.1038/s41598-018-29566-5] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2018] [Accepted: 07/13/2018] [Indexed: 01/10/2023]  Open
64
Ning Q, Zhao X, Bao L, Ma Z, Zhao X. Detecting Succinylation sites from protein sequences using ensemble support vector machine. BMC Bioinformatics 2018;19:237. [PMID: 29940836 PMCID: PMC6016146 DOI: 10.1186/s12859-018-2249-4] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2017] [Accepted: 06/14/2018] [Indexed: 12/14/2022]  Open
65
Gabere MN, Noble WS. Empirical comparison of web-based antimicrobial peptide prediction tools. Bioinformatics 2018;33:1921-1929. [PMID: 28203715 DOI: 10.1093/bioinformatics/btx081] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2016] [Accepted: 02/13/2017] [Indexed: 11/13/2022]  Open
66
Vishnepolsky B, Gabrielian A, Rosenthal A, Hurt DE, Tartakovsky M, Managadze G, Grigolava M, Makhatadze GI, Pirtskhalava M. Predictive Model of Linear Antimicrobial Peptides Active against Gram-Negative Bacteria. J Chem Inf Model 2018;58:1141-1151. [DOI: 10.1021/acs.jcim.8b00118] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
67
Ding M, Yang Y, Lan Z. Multi-label imbalanced classification based on assessments of cost and value. APPL INTELL 2018. [DOI: 10.1007/s10489-018-1156-8] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
68
Waghu FH, Joseph S, Ghawali S, Martis EA, Madan T, Venkatesh KV, Idicula-Thomas S. Designing Antibacterial Peptides with Enhanced Killing Kinetics. Front Microbiol 2018. [PMID: 29527201 PMCID: PMC5829097 DOI: 10.3389/fmicb.2018.00325] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]  Open
69
Riemenschneider M, Herbst A, Rasch A, Gorlatch S, Heider D. eccCL: parallelized GPU implementation of Ensemble Classifier Chains. BMC Bioinformatics 2017;18:371. [PMID: 28818036 PMCID: PMC5561639 DOI: 10.1186/s12859-017-1783-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2016] [Accepted: 08/08/2017] [Indexed: 11/30/2022]  Open
70
Cheng X, Zhao SG, Lin WZ, Xiao X, Chou KC. pLoc-mAnimal: predict subcellular localization of animal proteins with both single and multiple sites. Bioinformatics 2017;33:3524-3531. [DOI: 10.1093/bioinformatics/btx476] [Citation(s) in RCA: 167] [Impact Index Per Article: 20.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 07/22/2017] [Indexed: 12/24/2022]  Open
71
Holder LB, Haque MM, Skinner MK. Machine learning for epigenetics and future medical applications. Epigenetics 2017;12:505-514. [PMID: 28524769 PMCID: PMC5687335 DOI: 10.1080/15592294.2017.1329068] [Citation(s) in RCA: 61] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]  Open
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