Sixing Pana,
Jianan Zhoua,
Sujuan Zhoub,
Zhangpeng Huang*bc and
Jiang Meng*d
aCollege of Public Health, Guangdong Pharmaceutical University, Guangzhou, 510310, China. E-mail: 936305629@qq.com; Tel: +86 020 39352095
bCollege of Medical Information Engineering, Guangdong Pharmaceutical University, Guangzhou 510006, China. E-mail: huangzp@gdpu.edu.cn; Tel: +86 020 39352095
cMedicinal Information & Real World Engineering Technology Center, Guangdong Pharmaceutical University, Guangzhou 510006, China
dCollege of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, 510006, China. E-mail: jiangmeng666@126.com; Tel: +86 020 39352169
First published on 26th June 2020
Moutan Cortex (MC) and Moutan Cortex charcoal (MCC) are two kinds of Chinese medicinal materials widely used in traditional Chinese medicine (TCM) with opposite drug efficacy. And the contributions of the chemical component to the drug efficacy are still not clear. In our study, a support vector regression (SVR) model with particle swarm optimization (PSO) has been developed for simultaneously characterizing the pharmacokinetics (PK) and pharmacodynamics (PD) of MC/MCC. Then the contributions of the chemical component to the drug efficacy of MC/MCC are calculated by the weight analysis of SVR. The experimental results show that the effective substances found by the PSO-SVR model in MC and MCC are consistent with TCM theory. And the PSO-SVR model is a better model for PK–PD compared with the back-propagation neural network (BPNN). In conclusion, the PSO-SVR is a valuable tool that linked PK and PD profiles of MC/MCC with multiple components and identified the contributions of multiple therapeutic materials to the drug efficacy.
For effective components study of MC/MCC, the results of the previous research indicate that benzoic acid and quercetin may be the effective substance of MC, where gallic acid and 5-hydroxymethylfurfural (5-HMF) may be the effective substance of MCC.6 However the mechanism in change of its PK–PD and therapeutics are still unclear.
The constitution of herbal medicine is highly complex because of the multiple components and complex structure, which leads the TCM multi-component therapeutics. Usually, the research method of traditional Chinese medicine is to obtain a single compound through systematic separation, and then conduct efficacy tests for each compound separately to clarify the pharmacodynamic substances and mechanism of action. However, this traditional method requires a lot of chemical reagents, takes a long time, has low efficiency, and fails to explain the mechanism of action of multi-component and multi-target of traditional Chinese medicine. However a pharmacological intervention based on the interaction between multiple compounds and multiple targets, to become a great technical challenge in the field of Chinese medicine.7,8 It is high efficiency, simple and low consumption, and need not complex chemical experiments. PK–PD model, evolving rapidly from 1960s to now with the form of mathematical models, is widely used in medical clinical treatment applications9 for instance exploring the therapeutic mechanism of drugs, guiding clinically rational use of drugs and providing new ideas for the optimization of clinical drug.10–12 Conventional PK–PD model mainly include linear models, log-linear models, Emax models and β-function models, etc.13,14. With the development of modern Chinese medicine, the PK–PD combination model is frequently used to explore the mechanism of drug efficacy in TCM.15,16 However, the PK–PD is a complex interrelated system, which is difficult for a simple model to clearly reflect its internal mechanism. Therefore, more advanced and accurate analysis methods are gradually used in the modern PK–PD research for instance Monte Carlo simulation models, drug-target residence time model, liquid chromatography-tandem mass spectrometry (LC-MS/MS) and artificial neural network (ANN) for the PK–PD models.17–20
The above models have achieved certain effects in PK–PD analysis. However due to the small number of experimental samples, the matching degree of the analysis model needs to be improved. And the new machine learning methods are urgently needed for PK–PD analysis. Support vector machine (SVM) algorithm is a machine learning method, which is more suitable for the problems of small sample, nonlinearity, over-fitting and dimension disaster when compared with others, emphasizing simultaneously on minimizing empirical and expected risks.21–23 The main idea of SVM is to map input space to high-dimensional feature space using kernel function, and obtains the non-linear relationship between input and output variables. The generalization ability of the model can be improved by minimizing the structure risk, and obtain good statistical results in the case of fewer input samples. The support vector regression (SVR) is a regression prediction model based on SVM, which has advantages in processing high-dimensional data. SVR has been widely used in agriculture, imaging, localization and medicinal chemistry fields.24–26 However, there is no unified standard for the selection of SVR parameters, which needs to be determined in accordance with specific applications.27
In this paper, a machine learning model based on the SVM is proposed to establish a perdition model for the change of the medicinal efficacy of MC/MCC. And a global optimization technique base on particle swarm optimization algorithm (PSO) is adopted to find the better parameters for the SVR. Based on the PSO-SVR model, the contribution weight of the MC/MCC drug concentration of its main components to its drug efficacy is analyzed. Finally, the relationships of MC/MCC drug efficacy and the contributions of main chemical component content to drug efficacy is discussed and revealed.
Firstly, Male Wister rats, SPF grade (weighing 250 ± 30 g), were provided by Animal Experiment Center, Guangdong Academy of Medical Sciences (Certificate no. SCXK2013-0034). They have been divided into four groups, namely black group, model group (deficiency-cold and bleeding rats group), MC treated animals and MCC treated animals. Blood was collected at different time after the seventh day administration from rats, such as 0.083 0.25, 0.5, 0.75, 1, 2, 3, 4, 5, 6, 7, 10 and 12 h.
Furthermore, ten blood compounds of gallic acid, 5-HMF, 3-hydroxy-2-methyl-4-pyranone (3-H-2-M-4-P), oxpaeoniflorin, 3,8-dihydroxy-2-methylchromone (3,8-D-2-MC), paeoniflorin, benzoic acid, methyl paraben, quercetin and paeonol have been quantified using high-performance liquid chromatography method. Chromatographic conditions: Shimadzu LC-20AT system with DAD (Shimadzu Corp., Japan) was used for all analyses. Chromatographic separations were carried out at 30 °C on an Ultimate™ XB-C18 column (4.6 × 250 mm, 5 μm). The mobile phase consisted of acetonitrile (A) and water containing 0.2% formic acid (B). The gradient elution program was as follows: 0–10 min, 10% A; 10–20 min, 25% A; 20–45 min, 35% A; 45–80 min, 75% A; 80–90 min, 98% A; 90–95 min, 10% A. The flow rate was 1.0 mL min−1 and the injection volume was 20 μL. The content determination methods were all in line with the determination requirements,6 and the content of serum components was calculated according to the standard curve.
At the same time, pharmacodynamics were evaluated with TXB2, 6-keto-PGFlα of rats' serum were determined with enzyme-linked immunoassay detection. The details of the experiment will be published in another study.
f(x) = ωTφ(x) + b | (1) |
Using penalty factors c and relaxation variables ξi(i = 1, 2,……N), the solution of SVR becomes an optimization problem:
(2) |
The formula (2) can be transformed by using Lagrange equation:
(3) |
(4) |
(5) |
However, the penalty parameter c in the SVM model weighs the complexity of the model and the degree of approximation error, and the value affects the model's learning ability. And the parameter σ is the radial range of the RBF, which is the width of the kernel. It can be seen that the selection of the internal parameters (c, σ) of the SVR determines the prediction performance of the model. There is no standard yet to directly select the optimal value of parameter (c, σ). So the PSO algorithm is adopted to find the optimal parameter (c, σ) of the SVR.
The PSO algorithm is a parallel global search strategy based on population.29,30 It has faster convergence speed. It is an efficient global optimization algorithm that can effectively select the best combination of internal parameters for the SVR model and improve the prediction accuracy and generalization ability of the model. During each optimization process of PSO, the fitness function is calculated to evaluate the solution of parameter (c, σ). This function creates an output from the solution. In order to make the PK–PD model better fit the actual results, the fitness function can be specified as follows:
(6) |
(7) |
For the kth input feature, the contribution to the output can be calculated by the partial derivative:
(8) |
The Gaussian radial basis kernel function is selected as the kernel function in our algorithm, which is defined as:
(9) |
(10) |
Then, the weight metric of each feature is calculated as the absolute average of the sensitivity of the output to the inputs over the total data set, which is:31
(11) |
The contribution of each input feature xk to the regression result f(x) is defined as:
(12) |
The contribution of kth drug concentration to the drug efficacy can be calculated by eqn (10)–(12).
TXA2 is a biologically active substance released by platelet microsomal synthetic disease, which has strong vasoconstriction and platelet aggregation effects. It is because of its short half-life that, TXB2, its metabolite, is often used to reflect the metabolism level of TXA2 in the body. Prostaglandin (PGI2) is synthesized and released by vascular endothelial cells, and has anti-vasoconstriction and platelet aggregation effects. Similarly, 6-keto-PGFlα is a metabolite of PGI2, which can reflect the metabolism level of PGI2 in the body. In our study, the SVR model was developed to characterize the pharmacokinetic indexes and pharmacodynamic indexes of MC/MCC simultaneously. Then we can determine the effective substance of MC/MCC and investigate the mechanism by which processing reverses the efficacy of MC and MCC.
Time (h) | PK (content/μg mL−1) | PD (%) | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Gallic acid | 5-HMF | 3-H-2-M-4-P | Oxpaeoniflorin | 3,8-D-2-MC | Paeoniflorin | Benzoic acid | Methyl paraben | Quercetin | Paeonol | TXB2 | 6-Keto-PGFlα | |
a TXB2, % = (Ctreated animals − Cmodel animal)/(Cmodel animal − Cblack animal) × 100%. 6-Keto-PGFlα, % = (Ctreated animals − Cmodel animal)/(Cmodel animal − Cblack animal) × 100%. | ||||||||||||
0.08 | 78.06 | 22.89 | 3.18 | 0.96 | 65.06 | 84.19 | 17.98 | 0.69 | 89.32 | 2.97 | 1.12 | 0.05 |
0.25 | 88.72 | 33.84 | 3.67 | 1.21 | 80.75 | 114.71 | 24.20 | 1.61 | 120.70 | 3.35 | −0.07 | 0.63 |
0.5 | 102.00 | 36.25 | 4.11 | 1.23 | 107.34 | 184.15 | 35.60 | 1.92 | 248.61 | 4.42 | −0.38 | 0.60 |
0.75 | 133.14 | 51.90 | 2.52 | 1.27 | 120.85 | 75.15 | 39.79 | 3.13 | 256.99 | 6.02 | 0.41 | 0.89 |
1 | 113.30 | 64.61 | 2.15 | 1.46 | 78.55 | 53.40 | 54.21 | 1.43 | 270.83 | 2.20 | 0.89 | 1.26 |
2 | 96.66 | 119.27 | 1.44 | 1.55 | 37.11 | 53.62 | 51.24 | 0.50 | 301.84 | 4.14 | −0.10 | −0.53 |
3 | 73.65 | 103.69 | 1.08 | 1.50 | 36.57 | 35.84 | 65.02 | 0.67 | 412.90 | 4.77 | 0.63 | −0.02 |
4 | 63.71 | 76.60 | 1.36 | 1.73 | 22.61 | 52.76 | 127.25 | 0.56 | 451.64 | 3.00 | −0.02 | 1.06 |
6 | 46.25 | 58.06 | 0.75 | 1.02 | 23.00 | 52.06 | 69.82 | 0.60 | 219.12 | 2.11 | −0.82 | 1.19 |
8 | 45.90 | 22.82 | 0.97 | 1.04 | 17.96 | 44.03 | 71.83 | 0.30 | 287.27 | 1.33 | 0.94 | 0.92 |
10 | 42.48 | 15.21 | 0.90 | 0.96 | 11.36 | 36.26 | 61.01 | 0.27 | 351.53 | 1.05 | 0.99 | 0.34 |
12 | 31.11 | 9.97 | 0.72 | 0.90 | 5.61 | 22.03 | 31.37 | 0.17 | 206.96 | 0.94 | 0.55 | 2.04 |
Time (h) | PK (content/μg mL−1) | PD (%) | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Gallic acid | 5-HMF | 3-H-2-M-4-P | Oxpaeoniflorin | 3,8-D-2-MC | Paeoniflorin | Benzoic acid | Methyl paraben | Quercetin | Paeonol | TXB2 | 6-Keto-PGFlα | |
a TXB2, % = (Ctreated animals − Cmodel animal)/(Cmodel animal − Cblack animal) × 100%. 6-Keto-PGFlα, % = (Ctreated animals − Cmodel animal)/(Cmodel animal − Cblack animal) × 100%. | ||||||||||||
0.08 | 109.76 | 145.36 | 7.45 | 0.00 | 19.63 | 86.97 | 7.81 | 0.55 | 39.96 | 2.78 | 0.85 | 0.50 |
0.25 | 114.10 | 211.68 | 12.45 | 0.00 | 19.13 | 101.35 | 4.60 | 1.57 | 49.51 | 3.40 | 1.47 | 0.47 |
0.5 | 161.24 | 309.53 | 22.32 | 0.00 | 49.98 | 179.54 | 9.33 | 2.63 | 83.47 | 3.60 | 1.88 | 1.05 |
0.75 | 247.45 | 358.91 | 9.16 | 0.00 | 55.01 | 62.49 | 10.86 | 2.85 | 102.44 | 5.11 | 1.12 | 0.43 |
1 | 223.14 | 422.25 | 6.69 | 0.00 | 21.02 | 48.45 | 11.33 | 2.59 | 130.29 | 3.23 | 1.44 | 0.82 |
2 | 133.16 | 455.35 | 2.46 | 0.00 | 19.40 | 53.92 | 18.96 | 0.72 | 150.92 | 3.19 | 1.69 | 1.80 |
3 | 88.43 | 269.97 | 2.01 | 0.00 | 16.33 | 63.23 | 19.22 | 0.64 | 207.95 | 1.86 | 2.46 | 0.83 |
4 | 44.24 | 185.84 | 1.60 | 0.00 | 7.12 | 63.70 | 19.85 | 0.89 | 100.01 | 2.50 | 2.42 | 0.48 |
6 | 40.66 | 144.41 | 1.30 | 0.00 | 6.82 | 58.14 | 24.68 | 0.73 | 123.57 | 3.68 | 1.52 | 1.66 |
8 | 36.64 | 30.68 | 0.89 | 0.00 | 7.03 | 60.58 | 22.36 | 0.33 | 141.34 | 3.60 | 2.93 | 1.02 |
10 | 28.99 | 18.82 | 0.54 | 0.00 | 6.64 | 47.74 | 14.47 | 0.30 | 94.21 | 2.49 | 1.91 | −0.60 |
12 | 27.63 | 6.83 | 0.45 | 0.00 | 4.79 | 15.01 | 9.45 | 0.19 | 62.31 | 2.40 | 0.87 | 4.08 |
Drug efficacy values | MC | MCC | ||
---|---|---|---|---|
c | σ | c | σ | |
a c is the penalty factors and σ is the radial basis function parameter. | ||||
TXB2 | 92.721 | 42.244 | 61.188 | 9.858 |
6-Keto-PGFlα | 57.641 | 88.907 | 14.526 | 17.69 |
In order to test the PSO-SVR model, ten samples are randomly selected form the datasets. And the testing results of PSO-SVR model for MC are shown in Fig. 2. The absolute percentage error (%) (APE) are calculated for TXB2 and 6-keto-PGFlα for MC separately. And the results for MCC are shown in Fig. 3. Experiment results show that all the APE values of the test samples are below 9%. The proposed PSO-SVR model better reflects the relationship between the chemical component contents and the drug efficacy.
The results of the contributions of chemical component contents to each drug efficacy for MC and MCC are shown in Tables 4 and 5 separately. In the PSO-SVM model for MC, it show that the contributions of benzoic acid and quercetin to 6-keto-PGFlα are positive, while the contributions of benzoic acid and quercetin to TXB2 are negative. The results suggest that benzoic acid and quercetin may be the main pharmacological substance for MC to promote blood circulation, which verify the results of our previous research. At the same time, the contributions of 5-HMF and paeoniflorin to 6-keto-PGFlα are negative, while the contribution to TXB2 are small and positive. That means the 5-HMF and paeoniflorin may be the substance for hemostasis, which needs further research.
Components | TXB2 | 6-Keto-PGFlα |
---|---|---|
Gallic acid | −0.0828 | −0.5801 |
5-HMF | 0.0624 | −0.2874 |
3-Hydroxy-2-methyl-4-pyranone | −0.0382 | −0.4197 |
Oxpaeoniflorin | −0.0316 | −0.1703 |
3,8-Dihydroxy-2-methylchromone | −0.1239 | −0.6188 |
Paeoniflorin | 0.0791 | −0.1083 |
Benzoic acid | −0.0467 | 0.2869 |
Methyl paraben | −0.1357 | −0.3765 |
Quercetin | −0.1521 | 0.2990 |
Paeonol | −0.1784 | −0.4408 |
Components | TXB2 | 6-Keto-PGFlα |
---|---|---|
Gallic acid | 0.2592 | −0.3165 |
5-HMF | 0.1333 | −0.0885 |
3-Hydroxy-2-methyl-4-pyranone | −0.0611 | 0.3197 |
Oxpaeoniflorin | 0 | 0 |
3,8-Dihydroxy-2-methylchromone | −0.0588 | 0.0984 |
Paeoniflorin | −0.1403 | 0.3757 |
Benzoic acid | −0.3633 | 0.2061 |
Methyl paraben | −0.0313 | −0.0971 |
Quercetin | −0.2949 | −0.2422 |
Paeonol | −0.1301 | −0.0186 |
As shown in Table 5, the results show that the contributions of gallic acid and 5-HMF to TXB2 are positive, while the contributions to 6-keto-PGFlα are negative. These suggest that the gallic acid and 5-HMF may be the main effective substances for hemostasis in MCC, which are consistent with TCM theory. And there are the same contribution of the 5-HMF in MC and MCC.
However, the chemical components of 3-hydroxy-2-methyl-4-pyranone, 3,8-dihydroxy-2-methylchromone and paeoniflorin have positive contributions to 6-keto-PGFlα and negative contributions to TXB2. These suggest that these substances may have the effects of promoting blood circulation.
(13) |
(14) |
The results are shown in Table 6. The proposed PSO-SVR model for PK–PD of MC/MCC get better results, which has lower RMSE and MAPE values than the results of BPNN. Experiments show that the proposed PSO-SVR is more suitable for the simulation of PK–PD than BPNN. The reason may be that the SVR model works better in small sample datasets and the optimal parameters selection by the PSO algorithm. And experimental samples of PK–PD are always small due to the expense.
Drug efficacy values | MC | MCC | ||||||
---|---|---|---|---|---|---|---|---|
PSO-SVR | BPNN | PSO-SVR | BPNN | |||||
RMSE | MAPE | RMSE | MAPE | RMSE | MAPE | RMSE | MAPE | |
TXB2 | 0.031 | 5.31 | 0.069 | 7.82 | 0.029 | 4.65 | 0.57 | 7.74 |
6-Keto-PGFlα | 0.042 | 4.86 | 0.076 | 6.24 | 0.036 | 5.26 | 0.642 | 8.67 |
At the same time, there are some interesting results found by the PSO-SVR model for PK–PD of MC/MCC. The results show that the 5-HMF may have the hemostatic effect in the PK–PD model of MC, and which is verified in the PK–PD model of MCC. However, the 3-hydroxy-2-methyl-4-pyranone and 3,8-dihydroxy-2-methylchromone are found may have the effects of promoting blood circulation in PK–PD model of MCC. But no corresponding effect was found in the PK–PD model of MC. And the contribution results show that the paeoniflorin have opposite and contradictory effects in the PK–PD model of MC/MCC. All of these need more experiments to reveal the role and efficacy of these substances.
Finally we compare PSO-SVR with BPNN, which are two common methods in artificial intelligence analysis. The results show that the PSO-SVR outperform the BPNN in the PK–PD simulation of MC/MCC. The proposed PSO-SVR method provides an efficient means of modeling nonlinear relationship for PK–PD and is useful for the contribution analysis for Chinese materia medica with multi-component and multi-efficacy.
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