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For: Chang CCH, Li C, Webb GI, Tey B, Song J, Ramanan RN. Periscope: quantitative prediction of soluble protein expression in the periplasm of Escherichia coli. Sci Rep 2016;6:21844. [PMID: 26931649 PMCID: PMC4773868 DOI: 10.1038/srep21844] [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: 11/02/2015] [Accepted: 01/28/2016] [Indexed: 12/20/2022]  Open
Number Cited by Other Article(s)
1
Abuei H, Pirouzfar M, Mojiri A, Behzad-Behbahani A, Kalantari T, Bemani P, Farhadi A. Maximizing the recovery of the native p28 bacterial peptide with improved activity and maintained solubility and stability in Escherichia coli BL21 (DE3). J Microbiol Methods 2022;200:106560. [PMID: 36031157 DOI: 10.1016/j.mimet.2022.106560] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 08/10/2022] [Accepted: 08/20/2022] [Indexed: 02/06/2023]
2
Packiam KAR, Ooi CW, Li F, Mei S, Tey BT, Fang Ong H, Song J, Ramanan RN. PERISCOPE-Opt: Machine learning-based prediction of optimal fermentation conditions and yields of recombinant periplasmic protein expressed in Escherichia coli. Comput Struct Biotechnol J 2022;20:2909-2920. [PMID: 35765650 PMCID: PMC9201004 DOI: 10.1016/j.csbj.2022.06.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Revised: 06/01/2022] [Accepted: 06/01/2022] [Indexed: 11/26/2022]  Open
3
Ashrafuzzaman M. Artificial Intelligence, Machine Learning and Deep Learning in Ion Channel Bioinformatics. MEMBRANES 2021;11:membranes11090672. [PMID: 34564489 PMCID: PMC8467682 DOI: 10.3390/membranes11090672] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Revised: 08/20/2021] [Accepted: 08/30/2021] [Indexed: 11/28/2022]
4
Ahmed N, Afroze B, Abbas R, Khan MA, Akram M, Tahir S, Bakht S, Munir A, Shahid AA. Method for efficient soluble expression and purification of recombinant human interleukin-15. Protein Expr Purif 2020;177:105746. [PMID: 32916300 DOI: 10.1016/j.pep.2020.105746] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Revised: 08/27/2020] [Accepted: 08/30/2020] [Indexed: 11/29/2022]
5
Stepwise optimization of recombinant protein production in Escherichia coli utilizing computational and experimental approaches. Appl Microbiol Biotechnol 2020;104:3253-3266. [DOI: 10.1007/s00253-020-10454-w] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Revised: 01/28/2020] [Accepted: 02/07/2020] [Indexed: 12/14/2022]
6
Song J, Wang Y, Li F, Akutsu T, Rawlings ND, Webb GI, Chou KC. iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites. Brief Bioinform 2020;20:638-658. [PMID: 29897410 PMCID: PMC6556904 DOI: 10.1093/bib/bby028] [Citation(s) in RCA: 128] [Impact Index Per Article: 25.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2018] [Revised: 03/02/2018] [Indexed: 01/03/2023]  Open
7
Musil M, Konegger H, Hon J, Bednar D, Damborsky J. Computational Design of Stable and Soluble Biocatalysts. ACS Catal 2018. [DOI: 10.1021/acscatal.8b03613] [Citation(s) in RCA: 56] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
8
Yang KK, Wu Z, Bedbrook CN, Arnold FH. Learned protein embeddings for machine learning. Bioinformatics 2018;34:2642-2648. [PMID: 29584811 PMCID: PMC6061698 DOI: 10.1093/bioinformatics/bty178] [Citation(s) in RCA: 152] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Revised: 03/20/2018] [Accepted: 03/22/2018] [Indexed: 12/26/2022]  Open
9
Song J, Wang Y, Li F, Akutsu T, Rawlings ND, Webb GI, Chou KC. iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites. Brief Bioinform 2018. [DOI: 10.1093/bib/bby028 epub ahead of print].] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
10
Tyurin AA, Kabardaeva KV, Mustafaev ON, Pavlenko OS, Sadovskaya NS, Fadeev VS, Zvonova EA, Goldenkova-Pavlova IV. Expression of Soluble Active Interferon αA in Escherichia coli Periplasm by Fusion with Thermostable Lichenase Using the Domain Insertion Approach. BIOCHEMISTRY (MOSCOW) 2018;83:259-269. [DOI: 10.1134/s0006297918030069] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
11
Bedbrook CN, Yang KK, Rice AJ, Gradinaru V, Arnold FH. Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization. PLoS Comput Biol 2017;13:e1005786. [PMID: 29059183 PMCID: PMC5695628 DOI: 10.1371/journal.pcbi.1005786] [Citation(s) in RCA: 82] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Revised: 11/02/2017] [Accepted: 09/21/2017] [Indexed: 12/31/2022]  Open
12
Goffin P, Dewerchin M, De Rop P, Blais N, Dehottay P. High-yield production of recombinant CRM197, a non-toxic mutant of diphtheria toxin, in the periplasm ofEscherichia coli. Biotechnol J 2017;12. [DOI: 10.1002/biot.201700168] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Revised: 04/05/2017] [Accepted: 04/10/2017] [Indexed: 02/06/2023]
13
Structural and Functional Modeling of Artificial Bioactive Proteins. INFORMATION 2017. [DOI: 10.3390/info8010029] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]  Open
14
Ma Y, Kim SS, Kwag DG, Kim SH, Ryu SH, Lee DH, So JH, Lee C, Nam MM, Park JS. Peptides Containing Multiple Disulfide-Bond Mosaic Expression in the Periplasm ofEscherichia coli. B KOREAN CHEM SOC 2016. [DOI: 10.1002/bkcs.10895] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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