A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology
Network pharmacology is a method to study the mechanism of a Traditional Chinese Medicine (TCM) prescription on a disease. However, most articles using network pharmacology to study the mechanism did not combine the weight information of herbs, the weight information of targets of disease, and the i...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-06-01
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| Series: | Pharmacological Research - Modern Chinese Medicine |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667142521000154 |
| _version_ | 1818252545938685952 |
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| author | Zhenwen Xiong Wai Kin (Victor) Chan Chiungying Kuan Yuanjia Hu Daiyan Zhang |
| author_facet | Zhenwen Xiong Wai Kin (Victor) Chan Chiungying Kuan Yuanjia Hu Daiyan Zhang |
| author_sort | Zhenwen Xiong |
| collection | DOAJ |
| description | Network pharmacology is a method to study the mechanism of a Traditional Chinese Medicine (TCM) prescription on a disease. However, most articles using network pharmacology to study the mechanism did not combine the weight information of herbs, the weight information of targets of disease, and the interaction information between targets together. We propose a method, network pharmacology combined with two iterations of PageRank algorithm, to make use of these information. It takes prescription-disease system as a whole, calculates PageRank score of targets in the prescription-disease system, which means an importance in the system, and the score is used to rank the analysis results of GO and KEGG pathway which help us to analyze the mechanism of a prescription on a disease. At last, we use two prescription-disease pairs which have been proved effectiveness in clinical trials: Qingfei Paidu Decoction on COVID-19, and FuFang DanShen Diwan on Coronary Heart Disease, and find that the results of our method are consistent with some results of clinical trials. |
| first_indexed | 2024-12-12T16:25:53Z |
| format | Article |
| id | doaj.art-ab583e20285841dbaf5635491f03e460 |
| institution | Directory Open Access Journal |
| issn | 2667-1425 |
| language | English |
| last_indexed | 2024-12-12T16:25:53Z |
| publishDate | 2022-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Pharmacological Research - Modern Chinese Medicine |
| spelling | doaj.art-ab583e20285841dbaf5635491f03e4602022-12-22T00:18:53ZengElsevierPharmacological Research - Modern Chinese Medicine2667-14252022-06-013100016A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacologyZhenwen Xiong0Wai Kin (Victor) Chan1Chiungying Kuan2Yuanjia Hu3Daiyan Zhang4Tsinghua-Berkeley Shenzhen Institute, Tsinghua University, Shenzhen 518055, ChinaTsinghua-Berkeley Shenzhen Institute, Tsinghua University, Shenzhen 518055, China; Corresponding Author.Tsinghua-Berkeley Shenzhen Institute, Tsinghua University, Shenzhen 518055, ChinaState Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, ChinaState Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, ChinaNetwork pharmacology is a method to study the mechanism of a Traditional Chinese Medicine (TCM) prescription on a disease. However, most articles using network pharmacology to study the mechanism did not combine the weight information of herbs, the weight information of targets of disease, and the interaction information between targets together. We propose a method, network pharmacology combined with two iterations of PageRank algorithm, to make use of these information. It takes prescription-disease system as a whole, calculates PageRank score of targets in the prescription-disease system, which means an importance in the system, and the score is used to rank the analysis results of GO and KEGG pathway which help us to analyze the mechanism of a prescription on a disease. At last, we use two prescription-disease pairs which have been proved effectiveness in clinical trials: Qingfei Paidu Decoction on COVID-19, and FuFang DanShen Diwan on Coronary Heart Disease, and find that the results of our method are consistent with some results of clinical trials.http://www.sciencedirect.com/science/article/pii/S2667142521000154Network pharmacologyPagerank algorithmMechanism research |
| spellingShingle | Zhenwen Xiong Wai Kin (Victor) Chan Chiungying Kuan Yuanjia Hu Daiyan Zhang A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology Pharmacological Research - Modern Chinese Medicine Network pharmacology Pagerank algorithm Mechanism research |
| title | A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology |
| title_full | A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology |
| title_fullStr | A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology |
| title_full_unstemmed | A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology |
| title_short | A method of mechanism analysis about a traditional chinese medicine prescription on a disease based on PageRank algorithm and network pharmacology |
| title_sort | method of mechanism analysis about a traditional chinese medicine prescription on a disease based on pagerank algorithm and network pharmacology |
| topic | Network pharmacology Pagerank algorithm Mechanism research |
| url | http://www.sciencedirect.com/science/article/pii/S2667142521000154 |
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