Integrating systematic biological and proteomics strategies to explore the pharmacological mechanism of danshen yin modified on atherosclerosis

Yang, Kailin; Zeng, Liuting; Ge, Anqi; Pan, Xiaoping; Bao, Tingting; Long, Zhiyong; Tong, Qiao-Zhen; Yuan, Mengxia; Zhu, Xiaofei; Ge, Jinwen; Huang, Zhipei

doi:10.1111/jcmm.15979

Cited by 12 publications

(14 citation statements)

References 84 publications

(185 reference statements)

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“…e protein-protein interaction (PPI) data of resveratrol target and MIRI gene was collected from String (https://string-db.org/) [22,26].…”

Section: Network Construction and Analysis Methodsmentioning

confidence: 99%

“…e structure of resveratrol was retrieved in PubChem (https://pubchem.ncbi.nlm.nih.gov/) and saved in sdf format. Resveratrol's sdf format file is imported into PharmMapper using reverse molecular docking technology to obtain predicted targets [22,23]. GeneCards (http://www.…”

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

“…GeneCards (http://www. genecards.org) [24] and OMIM database (http://omim.org/) [25] were utilized to obtain the MIRI genes [22]. Relevance score > 1 was used as the criterion to include MIRI-related genes when searching GeneCards.…”

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

“…Relevance score > 1 was used as the criterion to include MIRI-related genes when searching GeneCards. MIRI gene and resveratrol target protein were imported into UniProt (https:// www.uniprot.org/) to get their official gene symbol (Table S1 and Table S2) [22].…”

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

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Systematic Pharmacology Reveals the Antioxidative Stress and Anti-Inflammatory Mechanisms of Resveratrol Intervention in Myocardial Ischemia-Reperfusion Injury

Xing

Xiong³

et al. 2021

Evidence-Based Complementary and Alternative Medicine

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Objective. To explore the oxidative stress and inflammatory mechanisms of resveratrol intervention in myocardial ischemia-reperfusion injury (MIRI). Methods. The potential targets of resveratrol were predicted by PharmMapper. The MIRI genes were collected by Online Mendelian Inheritance in Man (OMIM), GeneCards is used to collect related disease genes, and String is used for enrichment analysis. Animal experiments were then performed to verify the systematic pharmacological results. Hematoxylin-eosin (HE) staining was used to observe myocardial damage. The levels of serum interleukin-1β (IL-1β), IL-6, and tumor necrosis factor-α (TNF-α) in each experimental group were detected. The protein and mRNA expressions of Toll-like receptor 4 (TLR4), nuclear factor-kappa (NF-κB) p65, IL-1β, IL-6, and TNF-α in rat myocardial tissue were measured. Results. The results of systematic pharmacology showed that insulin resistance, FoxO signaling pathway, adipocytokine signaling pathway, insulin signaling pathway, PI3K-Akt signaling pathway, ErbB signaling pathway, T-cell receptor signaling pathway, peroxisome proliferator-activated receptors (PPAR) signaling pathway, Ras signaling pathway, TNF signaling pathway, and so on were regulated to improve MIRI. The results of animal experiments showed that the myocardial cells of the sham operation group were arranged in fibrous form, and the myocardial ischemia-reperfusion injury group had obvious cell morphology disorder. Compared with the MIRI group, the resveratrol group had a certain degree of relief. Compared with the MIRI group, serum IL-1β, TNF-α, and IL-6 in the resveratrol group was significantly reduced ( P < 0.05), and myocardial tissue TLR4, NF-κB p65, IL-1β, IL-6, and TNF-α mRNA and protein expressions were significantly reduced ( P < 0.05). Conclusion. Resveratrol can effectively improve MIRI, and its mechanism may be related to antioxidative stress and anti-inflammatory.

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“…e protein-protein interaction (PPI) data of resveratrol target and MIRI gene was collected from String (https://string-db.org/) [22,26].…”

Section: Network Construction and Analysis Methodsmentioning

confidence: 99%

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

Section: Resveratrol Target Prediction and Miri Disease Genementioning

confidence: 99%

See 2 more Smart Citations

Systematic Pharmacology Reveals the Antioxidative Stress and Anti-Inflammatory Mechanisms of Resveratrol Intervention in Myocardial Ischemia-Reperfusion Injury

Xing

Xiong³

et al. 2021

Evidence-Based Complementary and Alternative Medicine

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“… 6 However, the correlation between genomics changes and protein abundance is very poor, especially for low-abundance proteins. 7 Therefore, proteomics could be the bridge between genome information and functional proteins that helps to further the understanding of cancer. 8 , 9 …”

Section: Introductionmentioning

confidence: 99%

Quantitative proteomics characterization of cancer biomarkers and treatment

Yang

Shi

Zhang

et al. 2021

Molecular Therapy - Oncolytics

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Cancer accounted for 16% of all death worldwide in 2018. Significant progress has been made in understanding tumor occurrence, progression, diagnosis, treatment, and prognosis at the molecular level. However, genomics changes cannot truly reflect the state of protein activity in the body due to the poor correlation between genes and proteins. Quantitative proteomics, capable of quantifying the relatively different protein abundance in cancer patients, has been increasingly adopted in cancer research. Quantitative proteomics has great application potentials, including cancer diagnosis, personalized therapeutic drug selection, real-time therapeutic effects and toxicity evaluation, prognosis and drug resistance evaluation, and new therapeutic target discovery. In this review, the development, testing samples, and detection methods of quantitative proteomics are introduced. The biomarkers identified by quantitative proteomics for clinical diagnosis, prognosis, and drug resistance are reviewed. The challenges and prospects of quantitative proteomics for personalized medicine are also discussed.

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Omics in Quality Research of Chinese Medicines

Liu,

Wan

2024

Quality Control of Chinese Medicines

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Integrating systematic biological and proteomics strategies to explore the pharmacological mechanism of danshen yin modified on atherosclerosis

Abstract: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

Cited by 12 publications

References 84 publications

Systematic Pharmacology Reveals the Antioxidative Stress and Anti-Inflammatory Mechanisms of Resveratrol Intervention in Myocardial Ischemia-Reperfusion Injury

Systematic Pharmacology Reveals the Antioxidative Stress and Anti-Inflammatory Mechanisms of Resveratrol Intervention in Myocardial Ischemia-Reperfusion Injury

Quantitative proteomics characterization of cancer biomarkers and treatment

Omics in Quality Research of Chinese Medicines

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