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The traditional Chinese medicine database and HPLC was used to find the active compounds of DSYM, Pharmmapper database was used to predict potential targets, and OMIM database and GeneCards database were used to collect AS targets. String database was utilized to obtain the other protein of proteomics proteins and the protein\u2010protein interaction (PPI) data of DSYM targets, AS genes, proteomics proteins and other proteins. The Cytoscape 3.7.1 software was utilized to construct and analyse the network. The DAVID database is used to discover the biological processes and signalling pathways that these proteins aggregate. Finally, animal experiments and proteomics analysis were used to further verify the prediction results. The results showed that 140 active compounds, 405 DSYM targets and 590 AS genes were obtained, and 51 differentially expressed proteins were identified in the DSYM\u2010treated ApoE\u2010\/\u2010 mouse AS model. A total of 4 major networks and a number of their derivative networks were constructed and analysed. The prediction results showed that DSYM can regulate AS\u2010related biological processes and signalling pathways. Animal experiments have also shown that DSYM has a therapeutic effect on ApoE\u2010\/\u2010mouse AS model (<jats:italic>P<\/jats:italic>\u00a0&lt;\u00a0.05). Therefore, this study proposed a new method based on systems biology, proteomics, and experimental pharmacology, and analysed the pharmacological mechanism of DSYM. DSYM may achieve therapeutic effects by regulating AS\u2010related signalling pathways and biological processes found in this research.<\/jats:p>","DOI":"10.1111\/jcmm.15979","type":"journal-article","created":{"date-parts":[[2020,11,3]],"date-time":"2020-11-03T03:23:17Z","timestamp":1604373797000},"page":"13876-13898","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":14,"title":["Integrating systematic biological and proteomics strategies to explore the pharmacological mechanism of danshen yin modified on atherosclerosis"],"prefix":"10.1111","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1442-8644","authenticated-orcid":false,"given":"Kailin","family":"Yang","sequence":"first","affiliation":[{"name":"The First Affiliated Hospital of Hunan University of Chinese Medicine Changsha China"},{"name":"Hunan University of Chinese Medicine Changsha China"},{"name":"Capital Medical University Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Liuting","family":"Zeng","sequence":"additional","affiliation":[{"name":"Department of Rheumatology and Clinical Immunology Peking Union Medical College Hospital, Chinese Academy of Medical Sciences &amp; 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