1.A novel analysis and prediction method for potential mechanisms of traditional Chinese medicine based on artificial intelligence and omics data-driven approach
Chinese Journal of Tissue Engineering Research 2025;29(35):7552-7561
BACKGROUND:The treatment of diseases with traditional Chinese medicine is a complex multi-target regulatory process.It is of great significance to explore the multi-target integration effect of traditional Chinese medicine by combining technologies from multiple fields such as artificial intelligence,single-cell transcriptomics,spatial transcriptomics,and bioinformatics.OBJECTIVE:To propose a novel analytical prediction method for potential mechanisms of traditional Chinese medicines,which is different from network pharmacology,based on artificial intelligence and omics data driven,with an example of exploring the potential mechanisms of Dachaihu Decoction for treating hyperlipidemia and atherosclerosis.METHODS:(1)The pharmacodynamic protein targets of the constituent drugs of Dachaihu Decoction were collected through TCMSP database,and the disease targets of hyperlipidemia were obtained in Genecards,NCBI,and TTD.(2)The single-cell transcriptome samples of hyperlipidemia(the first set of single-cell data samples from aortic valves of wild-type,Apoe knockout,and Ldlr knockout mice;the second set of single-cell data samples from Ldlr knockout mice fed with high cholesterol versus normal feeding)and spatial transcriptome samples from human coronary atherosclerosis tissue sections were obtained from the GEO database.A deep neural network autoencoder model was developed to encode the transcriptome sequencing data,and the integrated coded values(MTIS)were mapped to the single-cell level and spatial organization level using single-cell transcriptome and spatial transcriptome technologies for comparative statistical analyses of the samples and identification of the main effector cells and effector genes.RESULTS AND CONCLUSION:(1)There were significant differences in the data morphology and statistics of MTIS between wildtype and Apoe-knockout mice treated with Dachaihu Decoction(P<0.000 1),as well as between wildtype and Ldlr-knockout mice treated with Dachaihu Decoction(P<0.000 1).(2)The main effector cells of Dachaihu Decoction in Apoe-knockout mice were aortic valve stromal cells,while the main effector cells in Ldlr-knockout mice were white blood cells,fibroblasts,and vascular endothelial cells.Except for Ldlr and Apoe,the main effector genes are Vcam1,Fn1,and Mmp2.(3)There were statistically significant differences(P<0.000 1)in MTIS between high cholesterol fed samples and normal fed samples of Ldlr-knockout mice treated with Dachaihu Decoction.The main effector cells were macrophages,and the main effector genes were Fn1,F7,Ptgs1,IL6 and App.(4)The spatial transcriptome comparisons of MTIS in human coronary artery slices showed that high MTIS value cells appeared to be distributed in both blood vessels and atherosclerotic plaque areas,while low MTIS value cells appeared to be mainly concentrated in the endothelial cells and atherosclerotic plaque areas.To conclude,this new analytical method achieves quantitative analysis of the multi-target integration effects of traditional Chinese medicine at the single-cell level and organ spatial tissue level,which is used to explore the potential mechanism of Dachaihu Decoction in treating hyperlipidemia and atherosclerosis.
2.A novel analysis and prediction method for potential mechanisms of traditional Chinese medicine based on artificial intelligence and omics data-driven approach
Chinese Journal of Tissue Engineering Research 2025;29(35):7552-7561
BACKGROUND:The treatment of diseases with traditional Chinese medicine is a complex multi-target regulatory process.It is of great significance to explore the multi-target integration effect of traditional Chinese medicine by combining technologies from multiple fields such as artificial intelligence,single-cell transcriptomics,spatial transcriptomics,and bioinformatics.OBJECTIVE:To propose a novel analytical prediction method for potential mechanisms of traditional Chinese medicines,which is different from network pharmacology,based on artificial intelligence and omics data driven,with an example of exploring the potential mechanisms of Dachaihu Decoction for treating hyperlipidemia and atherosclerosis.METHODS:(1)The pharmacodynamic protein targets of the constituent drugs of Dachaihu Decoction were collected through TCMSP database,and the disease targets of hyperlipidemia were obtained in Genecards,NCBI,and TTD.(2)The single-cell transcriptome samples of hyperlipidemia(the first set of single-cell data samples from aortic valves of wild-type,Apoe knockout,and Ldlr knockout mice;the second set of single-cell data samples from Ldlr knockout mice fed with high cholesterol versus normal feeding)and spatial transcriptome samples from human coronary atherosclerosis tissue sections were obtained from the GEO database.A deep neural network autoencoder model was developed to encode the transcriptome sequencing data,and the integrated coded values(MTIS)were mapped to the single-cell level and spatial organization level using single-cell transcriptome and spatial transcriptome technologies for comparative statistical analyses of the samples and identification of the main effector cells and effector genes.RESULTS AND CONCLUSION:(1)There were significant differences in the data morphology and statistics of MTIS between wildtype and Apoe-knockout mice treated with Dachaihu Decoction(P<0.000 1),as well as between wildtype and Ldlr-knockout mice treated with Dachaihu Decoction(P<0.000 1).(2)The main effector cells of Dachaihu Decoction in Apoe-knockout mice were aortic valve stromal cells,while the main effector cells in Ldlr-knockout mice were white blood cells,fibroblasts,and vascular endothelial cells.Except for Ldlr and Apoe,the main effector genes are Vcam1,Fn1,and Mmp2.(3)There were statistically significant differences(P<0.000 1)in MTIS between high cholesterol fed samples and normal fed samples of Ldlr-knockout mice treated with Dachaihu Decoction.The main effector cells were macrophages,and the main effector genes were Fn1,F7,Ptgs1,IL6 and App.(4)The spatial transcriptome comparisons of MTIS in human coronary artery slices showed that high MTIS value cells appeared to be distributed in both blood vessels and atherosclerotic plaque areas,while low MTIS value cells appeared to be mainly concentrated in the endothelial cells and atherosclerotic plaque areas.To conclude,this new analytical method achieves quantitative analysis of the multi-target integration effects of traditional Chinese medicine at the single-cell level and organ spatial tissue level,which is used to explore the potential mechanism of Dachaihu Decoction in treating hyperlipidemia and atherosclerosis.
3.Application of heated and humidified gas sources for delivery room resuscitation on the short-term outcomes of extremely preterm infants
Shan JIANG ; Huiyan WANG ; Chun CHEN ; Lin YI ; Aifen CAO ; Chuanzhong YANG ; Xiaoyun XIONG
Chinese Journal of Perinatal Medicine 2024;27(11):917-922
Objective:To observe the impacts of using heated and humidified gas sources for delivery room resuscitation on the short-term outcomes of extremely preterm infants.Methods:A retrospective study was conducted on 231 extremely preterm infants admitted to the neonatal intensive care unit of Shenzhen Maternity & Child Healthcare Hospital, the First School of Clinical Medicine, Southern Medical University, from January 2020 to December 2022. The infants were divided into two groups based on whether heated and humidified gas sources were used during delivery room resuscitation: the heated and humidified group (103 cases) and the non-heated and humidified group (128 cases). Independent sample t-tests, Chi-square tests, and Mann-Whitney U tests were used to compare general conditions and short-term outcomes between the groups. Multivariate logistic regression analysis was used to assess the impact of using heated and humidified gas sources during delivery room resuscitation on the short-term outcomes of extremely preterm infants. Results:Compared to the non-heated and humidified group, the heated and humidified group had a lower incidence of intubation resuscitation [28.2% (29/103) vs. 41.4% (53/128), χ 2=4.38], moderate to severe bronchopulmonary dysplasia (BPD)/death [22.3% (23/103) vs. 39.1% (50/128), χ 2=7.39] and low rectal temperature upon admission (<36.7 ℃) [57.3% (59/103) vs. 79.7% (102/128), χ 2=13.57], while the rectal temperature upon admission was higher [36.3 ℃ (36.0-36.7 ℃) vs. 35.9 ℃ (35.5-36.3 ℃), U=-5.05], with all differences being statistically significant (all P<0.05). After adjusting for gender, gestational age, mode of delivery, amniotic fluid condition, weight on admission, maternal premature rupture of membranes, assisted reproductive technology, and full course of prenatal steroid use, multivariate logistic regression analysis showed that the use of heated and humidified gas sources during delivery room resuscitation could increase the hospital admission rectal temperature ( β=0.46, 95% CI: 0.28-0.64), and decrease the risks of severe BPD/death ( aOR=0.39, 95% CI: 0.20-0.75), and low rectal temperature upon admission ( aOR=0.29, 95% CI: 0.16-0.55)(all P<0.05). Compared to the non-heated and humidified group, the heated and humidified group showed no statistically significant differences in the use of pulmonary surfactant [37.9% (39/103) vs. 43.8% (56/128), χ 2=1.45], incidence of stage Ⅲ or higher necrotizing enterocolitis [2.0% (2/103) vs. 5.5% (7/128), χ 2=2.06], grade Ⅲ or higher intracranial hemorrhage [2.9% (3/103) vs. 3.9% (5/128), χ 2=0.22], and retinopathy of prematurity requiring surgical treatment [3.9% (4/103) vs. 10.2% (13/128), χ 2=3.60] (all P>0.05). Conclusion:The use of heated and humidified gas sources during resuscitation of extremely preterm infants can reduce the risk of moderate to severe BPD/death, help maintain warmth during resuscitation, and do not adversely affect other short-term outcomes.
4.Arterial stiffness in subclinical atherosclerosis quantified with ultrafast pulse wave velocity measurements: a comparison with a healthy population using propensity score matching
Xuezhong JIANG ; Weiming GE ; Hui HUANG ; Yating LI ; Xiaojing LIU ; Huiyan PANG ; Rui HE ; Hui WANG ; Zhengqiu ZHU ; Ping HE ; Yinping WANG ; Xuehui MA ; Airong REN ; Bixiao SHEN ; Meijuan WANG
Ultrasonography 2024;43(4):263-271
Purpose:
This study aimed to evaluate changes in ultrafast pulse wave velocity (ufPWV) in individuals with arterial stiffness and subclinical atherosclerosis (subAS), and to provide cutoff values.
Methods:
This retrospective study recruited 231 participants, including 67 patients with subAS. The pulse wave velocity was measured at the beginning and end of systole (PWV-BS and PWVES, respectively) using ultrafast ultrasonography to assess arterial stiffness. The right and left common carotid arteries were measured separately, and laboratory metabolic parameters were also collected. Participants were balanced between groups using propensity score matching (PSM) at a 1:1 ratio, adjusting for age, sex, and waist-to-hip ratio as potential confounders. Cutoff values of ufPWV for monitoring subAS were determined via receiver operating characteristic (ROC) curve analysis.
Results:
PWV-ES, unlike PWV-BS, was higher in the subAS subgroup than in the subAS-free group after PSM (all P<0.05). For each 1 m/s increase in left, right, and bilateral mean PWV-ES, the risk of subAS increased by 23% (95% confidence interval [CI], 1.04 to 1.46), 26% (95% CI, 1.07 to 1.52), and 38% (95% CI, 1.12 to 1.72), respectively. According to ROC analyses, predictive potential was found for left PWV-ES (cutoff value=7.910 m/s, P=0.002), right PWV-ES (cutoff value=6.615 m/s, P=0.003), and bilateral mean PWV-ES (cutoff value=7.415 m/s, P<0.001), but not for PWV-BS (all P>0.05).
Conclusion
PWV-ES measured using ultrafast ultrasonography was significantly higher in individuals with subAS than in those without. Specific PWV-ES cutoff values showed potential for predicting an increased risk of subAS.
5.Arterial stiffness in subclinical atherosclerosis quantified with ultrafast pulse wave velocity measurements: a comparison with a healthy population using propensity score matching
Xuezhong JIANG ; Weiming GE ; Hui HUANG ; Yating LI ; Xiaojing LIU ; Huiyan PANG ; Rui HE ; Hui WANG ; Zhengqiu ZHU ; Ping HE ; Yinping WANG ; Xuehui MA ; Airong REN ; Bixiao SHEN ; Meijuan WANG
Ultrasonography 2024;43(4):263-271
Purpose:
This study aimed to evaluate changes in ultrafast pulse wave velocity (ufPWV) in individuals with arterial stiffness and subclinical atherosclerosis (subAS), and to provide cutoff values.
Methods:
This retrospective study recruited 231 participants, including 67 patients with subAS. The pulse wave velocity was measured at the beginning and end of systole (PWV-BS and PWVES, respectively) using ultrafast ultrasonography to assess arterial stiffness. The right and left common carotid arteries were measured separately, and laboratory metabolic parameters were also collected. Participants were balanced between groups using propensity score matching (PSM) at a 1:1 ratio, adjusting for age, sex, and waist-to-hip ratio as potential confounders. Cutoff values of ufPWV for monitoring subAS were determined via receiver operating characteristic (ROC) curve analysis.
Results:
PWV-ES, unlike PWV-BS, was higher in the subAS subgroup than in the subAS-free group after PSM (all P<0.05). For each 1 m/s increase in left, right, and bilateral mean PWV-ES, the risk of subAS increased by 23% (95% confidence interval [CI], 1.04 to 1.46), 26% (95% CI, 1.07 to 1.52), and 38% (95% CI, 1.12 to 1.72), respectively. According to ROC analyses, predictive potential was found for left PWV-ES (cutoff value=7.910 m/s, P=0.002), right PWV-ES (cutoff value=6.615 m/s, P=0.003), and bilateral mean PWV-ES (cutoff value=7.415 m/s, P<0.001), but not for PWV-BS (all P>0.05).
Conclusion
PWV-ES measured using ultrafast ultrasonography was significantly higher in individuals with subAS than in those without. Specific PWV-ES cutoff values showed potential for predicting an increased risk of subAS.
6.Arterial stiffness in subclinical atherosclerosis quantified with ultrafast pulse wave velocity measurements: a comparison with a healthy population using propensity score matching
Xuezhong JIANG ; Weiming GE ; Hui HUANG ; Yating LI ; Xiaojing LIU ; Huiyan PANG ; Rui HE ; Hui WANG ; Zhengqiu ZHU ; Ping HE ; Yinping WANG ; Xuehui MA ; Airong REN ; Bixiao SHEN ; Meijuan WANG
Ultrasonography 2024;43(4):263-271
Purpose:
This study aimed to evaluate changes in ultrafast pulse wave velocity (ufPWV) in individuals with arterial stiffness and subclinical atherosclerosis (subAS), and to provide cutoff values.
Methods:
This retrospective study recruited 231 participants, including 67 patients with subAS. The pulse wave velocity was measured at the beginning and end of systole (PWV-BS and PWVES, respectively) using ultrafast ultrasonography to assess arterial stiffness. The right and left common carotid arteries were measured separately, and laboratory metabolic parameters were also collected. Participants were balanced between groups using propensity score matching (PSM) at a 1:1 ratio, adjusting for age, sex, and waist-to-hip ratio as potential confounders. Cutoff values of ufPWV for monitoring subAS were determined via receiver operating characteristic (ROC) curve analysis.
Results:
PWV-ES, unlike PWV-BS, was higher in the subAS subgroup than in the subAS-free group after PSM (all P<0.05). For each 1 m/s increase in left, right, and bilateral mean PWV-ES, the risk of subAS increased by 23% (95% confidence interval [CI], 1.04 to 1.46), 26% (95% CI, 1.07 to 1.52), and 38% (95% CI, 1.12 to 1.72), respectively. According to ROC analyses, predictive potential was found for left PWV-ES (cutoff value=7.910 m/s, P=0.002), right PWV-ES (cutoff value=6.615 m/s, P=0.003), and bilateral mean PWV-ES (cutoff value=7.415 m/s, P<0.001), but not for PWV-BS (all P>0.05).
Conclusion
PWV-ES measured using ultrafast ultrasonography was significantly higher in individuals with subAS than in those without. Specific PWV-ES cutoff values showed potential for predicting an increased risk of subAS.
7.Clinical Application of Fresh Plantaginis Herba in Acient and Modern Medical Works
Rikai ZHAO ; Xin JIANG ; Huiyan YANG ; Mingsan MIAO
Chinese Journal of Experimental Traditional Medical Formulae 2024;30(5):159-169
ObjectiveTo explore the clinical application law and provide literature support and development ideas for the modern application of fresh Plantaginis Herba. MethodThe literature about the application of fresh Plantaginis Herba was retrieved from the fifth edition of Chinese medical dictionary, China national knowledge infrastructure (CNKI), VIP, Wanfang data, and Chinese medical journals and analyzed. ResultFresh Plantaginis Herba appeared frequently in ancient books, with the effects of clearing heat, cooling blood, promoting urination, and relieving stranguria. It was used for the treatment of stranguria, urine retention, bloody urine, sore and carbuncle, epistaxis, red and swelling eye, suppurative inflammation in the throat, and gynecological and pediatric diseases. According to modern medical publications, fresh Plantaginis Herba is mainly used to treated diseases in the kidney, five sense organs, spleen, stomach, lung, liver, gallbladder, and skin and gynecological and pediatric diseases. Specifically, it is mainly used to treat the syndrome of dampness and heat in kidney and skin diseases caused by the accumulation of dampness and heat toxin, with the effects of clearing heat, removing toxin, promoting urination, and relieving stranguria. Since ancient times, there have been reports of using fresh Plantaginis Herbausing for food and health care. ConclusionFresh Plantaginis Herba is widely used in clinical practice and has a high medical value and economic value. However, its modern application lags behind, so it is necessary to promote the development of fresh Plantaginis Herba from the aspects of medicinal material production, storage, transportation, preparation research and development, and clinical application.
8.Application of Animal Models of Corneal Neovascularization Based on Data Mining
Rikai ZHAO ; Huiyan YANG ; Ying LIU ; Xin JIANG ; Mingsan MIAO
Chinese Journal of Experimental Traditional Medical Formulae 2024;30(9):166-173
ObjectiveTo provide a reference for the establishment of an ideal corneal neovascularization (CNV) animal model by summarizing the modeling characteristics of CNV animal models. MethodWith "CVN" as the theme word, this paper searched the China National Knowledge Infrastructure (CNKI), Wanfang, Chinese medical journals full-text database, and PubMed database and screened out relevant literature on CNV animal experiments from 2013 to 2023. The database was established by Excel 2021, and the experimental animal strain, gender, modeling method, detection index, and application category were sorted out. The characteristics of the CNV animal model were analyzed. ResultAfter comparative analysis, it was found that the animal strains were Sprague-Dawley rats (87 times, 29.49%) and New Zealand white rabbits (52 times, 17.63%). Male animals were recommended. Most modeling methods for efficacy verification and mechanism studies were the alkali burn method. Index detection methods included apparent index observation, histopathological detection, immunohistochemistry (IHC), Western blot, and various polymerase chain reaction (PCR) tests. Detection indexes included apparent indication, corneal histopathology, CNV regulation, etc. ConclusionThe CNV model of SD rats induced by the alkali burn method is recommended for model replication, and the indexes are mainly selected from the growth of CNV, corneal histopathological test, and vascular endothelial growth factor (VEGF)-related test. In addition, according to the demand, the corneal apparent indication and the basic indexes related to the regulation of CNV, such as vascular endothelial growth factor receptor 2 (VEGFR2), basic fibroblast growth factor (bFGF), and secretogranin Ⅲ (Scg3) are also selected. Clinical treatment of CNV relies on anti-inflammatory drugs and anti-VEGF drugs, and there is a lack of application of traditional Chinese medicine (TCM), so the model needs to be improved by adding elements of TCM syndromes.
9.Arterial stiffness in subclinical atherosclerosis quantified with ultrafast pulse wave velocity measurements: a comparison with a healthy population using propensity score matching
Xuezhong JIANG ; Weiming GE ; Hui HUANG ; Yating LI ; Xiaojing LIU ; Huiyan PANG ; Rui HE ; Hui WANG ; Zhengqiu ZHU ; Ping HE ; Yinping WANG ; Xuehui MA ; Airong REN ; Bixiao SHEN ; Meijuan WANG
Ultrasonography 2024;43(4):263-271
Purpose:
This study aimed to evaluate changes in ultrafast pulse wave velocity (ufPWV) in individuals with arterial stiffness and subclinical atherosclerosis (subAS), and to provide cutoff values.
Methods:
This retrospective study recruited 231 participants, including 67 patients with subAS. The pulse wave velocity was measured at the beginning and end of systole (PWV-BS and PWVES, respectively) using ultrafast ultrasonography to assess arterial stiffness. The right and left common carotid arteries were measured separately, and laboratory metabolic parameters were also collected. Participants were balanced between groups using propensity score matching (PSM) at a 1:1 ratio, adjusting for age, sex, and waist-to-hip ratio as potential confounders. Cutoff values of ufPWV for monitoring subAS were determined via receiver operating characteristic (ROC) curve analysis.
Results:
PWV-ES, unlike PWV-BS, was higher in the subAS subgroup than in the subAS-free group after PSM (all P<0.05). For each 1 m/s increase in left, right, and bilateral mean PWV-ES, the risk of subAS increased by 23% (95% confidence interval [CI], 1.04 to 1.46), 26% (95% CI, 1.07 to 1.52), and 38% (95% CI, 1.12 to 1.72), respectively. According to ROC analyses, predictive potential was found for left PWV-ES (cutoff value=7.910 m/s, P=0.002), right PWV-ES (cutoff value=6.615 m/s, P=0.003), and bilateral mean PWV-ES (cutoff value=7.415 m/s, P<0.001), but not for PWV-BS (all P>0.05).
Conclusion
PWV-ES measured using ultrafast ultrasonography was significantly higher in individuals with subAS than in those without. Specific PWV-ES cutoff values showed potential for predicting an increased risk of subAS.
10.Arterial stiffness in subclinical atherosclerosis quantified with ultrafast pulse wave velocity measurements: a comparison with a healthy population using propensity score matching
Xuezhong JIANG ; Weiming GE ; Hui HUANG ; Yating LI ; Xiaojing LIU ; Huiyan PANG ; Rui HE ; Hui WANG ; Zhengqiu ZHU ; Ping HE ; Yinping WANG ; Xuehui MA ; Airong REN ; Bixiao SHEN ; Meijuan WANG
Ultrasonography 2024;43(4):263-271
Purpose:
This study aimed to evaluate changes in ultrafast pulse wave velocity (ufPWV) in individuals with arterial stiffness and subclinical atherosclerosis (subAS), and to provide cutoff values.
Methods:
This retrospective study recruited 231 participants, including 67 patients with subAS. The pulse wave velocity was measured at the beginning and end of systole (PWV-BS and PWVES, respectively) using ultrafast ultrasonography to assess arterial stiffness. The right and left common carotid arteries were measured separately, and laboratory metabolic parameters were also collected. Participants were balanced between groups using propensity score matching (PSM) at a 1:1 ratio, adjusting for age, sex, and waist-to-hip ratio as potential confounders. Cutoff values of ufPWV for monitoring subAS were determined via receiver operating characteristic (ROC) curve analysis.
Results:
PWV-ES, unlike PWV-BS, was higher in the subAS subgroup than in the subAS-free group after PSM (all P<0.05). For each 1 m/s increase in left, right, and bilateral mean PWV-ES, the risk of subAS increased by 23% (95% confidence interval [CI], 1.04 to 1.46), 26% (95% CI, 1.07 to 1.52), and 38% (95% CI, 1.12 to 1.72), respectively. According to ROC analyses, predictive potential was found for left PWV-ES (cutoff value=7.910 m/s, P=0.002), right PWV-ES (cutoff value=6.615 m/s, P=0.003), and bilateral mean PWV-ES (cutoff value=7.415 m/s, P<0.001), but not for PWV-BS (all P>0.05).
Conclusion
PWV-ES measured using ultrafast ultrasonography was significantly higher in individuals with subAS than in those without. Specific PWV-ES cutoff values showed potential for predicting an increased risk of subAS.

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