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For: Chen L, Lu J, Huang T, Yin J, Wei L, Cai YD. Finding candidate drugs for hepatitis C based on chemical-chemical and chemical-protein interactions. PLoS One 2014;9:e107767. [PMID: 25225900 PMCID: PMC4166673 DOI: 10.1371/journal.pone.0107767] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2014] [Accepted: 08/14/2014] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Li YX, Zhang M, Shimadate Y, Kato A, Wang JZ, Jia YM, Fleet GWJ, Yu CY. C-2 fluorinated castanospermines as potent and specific α-glucosidase inhibitors: synthesis and structure-activity relationship study. Org Biomol Chem 2025;23:2854-2877. [PMID: 39976182 DOI: 10.1039/d4ob01542h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/21/2025]
2
Kumari P, Pradhan B, Koromina M, Patrinos GP, Steen KV. Discovery of new drug indications for COVID-19: A drug repurposing approach. PLoS One 2022;17:e0267095. [PMID: 35609015 PMCID: PMC9129022 DOI: 10.1371/journal.pone.0267095] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Accepted: 04/03/2022] [Indexed: 11/19/2022]  Open
3
Edeh MO, Dalal S, Dhaou IB, Agubosim CC, Umoke CC, Richard-Nnabu NE, Dahiya N. Artificial Intelligence-Based Ensemble Learning Model for Prediction of Hepatitis C Disease. Front Public Health 2022;10:892371. [PMID: 35570979 PMCID: PMC9092454 DOI: 10.3389/fpubh.2022.892371] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Accepted: 03/17/2022] [Indexed: 12/15/2022]  Open
4
Tran TD, Pham DT. Identification of anticancer drug target genes using an outside competitive dynamics model on cancer signaling networks. Sci Rep 2021;11:14095. [PMID: 34238960 PMCID: PMC8266823 DOI: 10.1038/s41598-021-93336-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Accepted: 06/23/2021] [Indexed: 12/16/2022]  Open
5
Biziukova N, Tarasova O, Ivanov S, Poroikov V. Automated Extraction of Information From Texts of Scientific Publications: Insights Into HIV Treatment Strategies. Front Genet 2021;11:618862. [PMID: 33414815 PMCID: PMC7783389 DOI: 10.3389/fgene.2020.618862] [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: 10/18/2020] [Accepted: 11/26/2020] [Indexed: 12/16/2022]  Open
6
Wang W, Yang X, Wu C, Yang C. CGINet: graph convolutional network-based model for identifying chemical-gene interaction in an integrated multi-relational graph. BMC Bioinformatics 2020;21:544. [PMID: 33243142 PMCID: PMC7689985 DOI: 10.1186/s12859-020-03899-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Accepted: 11/19/2020] [Indexed: 11/19/2022]  Open
7
Zhou B, Zhao X, Lu J, Sun Z, Liu M, Zhou Y, Liu R, Wang Y. Relating Substructures and Side Effects of Drugs with Chemical-chemical Interactions. Comb Chem High Throughput Screen 2020;23:285-294. [DOI: 10.2174/1386207322666190702102752] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2018] [Revised: 03/11/2019] [Accepted: 04/16/2019] [Indexed: 12/17/2022]
8
Patel RD, Prasanth Kumar S, Pandya HA, Solanki HA. MDCKpred: a web-tool to calculate MDCK permeability coefficient of small molecule using membrane-interaction chemical features. Toxicol Mech Methods 2018;28:685-698. [PMID: 29998769 DOI: 10.1080/15376516.2018.1499840] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
9
Chen L, Lu J, Huang T, Cai YD. A computational method for the identification of candidate drugs for non-small cell lung cancer. PLoS One 2017;12:e0183411. [PMID: 28820893 PMCID: PMC5562320 DOI: 10.1371/journal.pone.0183411] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2017] [Accepted: 08/03/2017] [Indexed: 11/25/2022]  Open
10
Liao JM, Wang YT, Lin CLS. A fragment-based docking simulation for investigating peptide–protein bindings. Phys Chem Chem Phys 2017;19:10436-10442. [DOI: 10.1039/c6cp07136h] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
11
Ma N, Yang GZ, Liu XW, Yang YJ, Mohamed I, Liu GR, Li JY. Impact of Aspirin Eugenol Ester on Cyclooxygenase-1, Cyclooxygenase-2, C-Reactive Protein, Prothrombin and Arachidonate 5-Lipoxygenase in Healthy Rats. IRANIAN JOURNAL OF PHARMACEUTICAL RESEARCH : IJPR 2017;16:1443-1451. [PMID: 29552053 PMCID: PMC5843306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
12
Zhang J, Yang J, Huang T, Shu Y, Chen L. Identification of novel proliferative diabetic retinopathy related genes on protein–protein interaction network. Neurocomputing 2016. [DOI: 10.1016/j.neucom.2015.09.136] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
13
The Use of Gene Ontology Term and KEGG Pathway Enrichment for Analysis of Drug Half-Life. PLoS One 2016;11:e0165496. [PMID: 27780226 PMCID: PMC5079577 DOI: 10.1371/journal.pone.0165496] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2016] [Accepted: 10/12/2016] [Indexed: 02/07/2023]  Open
14
Zhu L, Chen X, Kong X, Cai YD. Investigation of the roles of trace elements during hepatitis C virus infection using protein-protein interactions and a shortest path algorithm. Biochim Biophys Acta Gen Subj 2016;1860:2756-68. [PMID: 27208424 DOI: 10.1016/j.bbagen.2016.05.018] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Revised: 05/05/2016] [Accepted: 05/13/2016] [Indexed: 12/12/2022]
15
Chen L, Zhang YH, Zou Q, Chu C, Ji Z. Analysis of the chemical toxicity effects using the enrichment of Gene Ontology terms and KEGG pathways. Biochim Biophys Acta Gen Subj 2016;1860:2619-26. [PMID: 27208425 DOI: 10.1016/j.bbagen.2016.05.015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2016] [Revised: 04/25/2016] [Accepted: 05/13/2016] [Indexed: 02/06/2023]
16
Liu L, Chen L, Zhang YH, Wei L, Cheng S, Kong X, Zheng M, Huang T, Cai YD. Analysis and prediction of drug-drug interaction by minimum redundancy maximum relevance and incremental feature selection. J Biomol Struct Dyn 2016;35:312-329. [PMID: 26750516 DOI: 10.1080/07391102.2016.1138142] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
17
Lu J, Chen L, Yin J, Huang T, Bi Y, Kong X, Zheng M, Cai YD. Identification of new candidate drugs for lung cancer using chemical-chemical interactions, chemical-protein interactions and a K-means clustering algorithm. J Biomol Struct Dyn 2016;34:906-17. [PMID: 26849843 DOI: 10.1080/07391102.2015.1060161] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
18
Chen L, Yang J, Huang T, Kong X, Lu L, Cai YD. Mining for novel tumor suppressor genes using a shortest path approach. J Biomol Struct Dyn 2015. [PMID: 26209080 DOI: 10.1080/07391102.2015.1042915] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
19
Identification of Chemical Toxicity Using Ontology Information of Chemicals. COMPUTATIONAL AND MATHEMATICAL METHODS IN MEDICINE 2015;2015:246374. [PMID: 26508991 PMCID: PMC4609800 DOI: 10.1155/2015/246374] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/26/2015] [Revised: 03/20/2015] [Accepted: 03/22/2015] [Indexed: 12/26/2022]
20
Identifying New Candidate Genes and Chemicals Related to Prostate Cancer Using a Hybrid Network and Shortest Path Approach. COMPUTATIONAL AND MATHEMATICAL METHODS IN MEDICINE 2015;2015:462363. [PMID: 26504486 PMCID: PMC4609422 DOI: 10.1155/2015/462363] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/24/2015] [Accepted: 02/24/2015] [Indexed: 12/26/2022]
21
Chen L, Chu C, Lu J, Kong X, Huang T, Cai YD. A computational method for the identification of new candidate carcinogenic and non-carcinogenic chemicals. MOLECULAR BIOSYSTEMS 2015;11:2541-50. [PMID: 26194467 DOI: 10.1039/c5mb00276a] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
22
Gao YF, Yuan F, Liu J, Li LP, He YC, Gao RJ, Cai YD, Jiang Y. Identification of New Candidate Genes and Chemicals Related to Esophageal Cancer Using a Hybrid Interaction Network of Chemicals and Proteins. PLoS One 2015;10:e0129474. [PMID: 26058041 PMCID: PMC4461353 DOI: 10.1371/journal.pone.0129474] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Accepted: 05/10/2015] [Indexed: 01/04/2023]  Open
23
Chen L, Yang J, Zheng M, Kong X, Huang T, Cai YD. The Use of Chemical-Chemical Interaction and Chemical Structure to Identify New Candidate Chemicals Related to Lung Cancer. PLoS One 2015;10:e0128696. [PMID: 26047514 PMCID: PMC4457841 DOI: 10.1371/journal.pone.0128696] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2014] [Accepted: 04/29/2015] [Indexed: 11/19/2022]  Open
24
Chen L, Chu C, Lu J, Kong X, Huang T, Cai YD. Gene Ontology and KEGG Pathway Enrichment Analysis of a Drug Target-Based Classification System. PLoS One 2015;10:e0126492. [PMID: 25951454 PMCID: PMC4423955 DOI: 10.1371/journal.pone.0126492] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2014] [Accepted: 04/02/2015] [Indexed: 12/22/2022]  Open
25
Chen L, Chu C, Huang T, Kong X, Cai YD. Prediction and analysis of cell-penetrating peptides using pseudo-amino acid composition and random forest models. Amino Acids 2015;47:1485-93. [PMID: 25894890 DOI: 10.1007/s00726-015-1974-5] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2015] [Accepted: 03/27/2015] [Indexed: 12/26/2022]
26
Jiang Y, Zhang P, Li LP, He YC, Gao RJ, Gao YF. Identification of novel thyroid cancer-related genes and chemicals using shortest path algorithm. BIOMED RESEARCH INTERNATIONAL 2015;2015:964795. [PMID: 25874234 PMCID: PMC4385622 DOI: 10.1155/2015/964795] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2014] [Accepted: 12/05/2014] [Indexed: 02/07/2023]
27
Vu TH, Le Lamer AC, Lalli C, Boustie J, Samson M, Lohézic-Le Dévéhat F, Le Seyec J. Depsides: lichen metabolites active against hepatitis C virus. PLoS One 2015;10:e0120405. [PMID: 25793970 PMCID: PMC4368788 DOI: 10.1371/journal.pone.0120405] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2014] [Accepted: 01/25/2015] [Indexed: 11/18/2022]  Open
28
Prediction of drug indications based on chemical interactions and chemical similarities. BIOMED RESEARCH INTERNATIONAL 2015;2015:584546. [PMID: 25821813 PMCID: PMC4363546 DOI: 10.1155/2015/584546] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/09/2014] [Accepted: 09/11/2014] [Indexed: 12/13/2022]
29
Chen L, Chu C, Kong X, Huang T, Cai YD. Discovery of new candidate genes related to brain development using protein interaction information. PLoS One 2015;10:e0118003. [PMID: 25635857 PMCID: PMC4311913 DOI: 10.1371/journal.pone.0118003] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Accepted: 01/03/2015] [Indexed: 12/18/2022]  Open
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