Abstract
Hyaluronic acid-paclitaxel conjugate is a nanoparticle-based drug delivery system that combines hyaluronic acid with paclitaxel, enhancing its solubility, stability, and targeting specificity. This conjugate shows promise in treating breast, lung, and ovarian cancers with reduced side effects. Entropy measures are used to predict physical and chemical properties of drugs. In this paper, we compute entropy measures for the hyaluronic acid-paclitaxel conjugate using the edge/connectivity partition approach. We establish a quantitative structure-property relationship using reverse entropy measures to predict physical properties of cancer drugs. Multiple linear, Ridge, Lasso, ElasticNet, and Support Vector regression models are employed using Python software. Our results show that reverse entropy measures exhibit high predictive capability for physical properties, based on the highest coefficient of determination and lowest mean squared error. We conclude that physical properties, including boiling point, enthalpy of vaporization, flash point, molar refractivity, molar volume, polarization, molecular weight, monoisotopic mass, topological polar surface area, and complexity, can be predicted using reverse entropy measures. We propose models for each relationship, including only the most significant models for estimating uncalculated physical properties.
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Introduction
The mathematical field of chemical graph theory focuses on the study of chemical graphs, which are mathematical structures representing pairwise interactions between entities1. A graph consists of two primary components: edges (bonds) and vertices (atoms), also referred to as nodes. In this representation, vertices denote atoms, while edges (bonds) represent the interactions between them2.
Mathematical chemistry, a subfield of theoretical chemistry, employs mathematical methodologies to investigate and understand the properties and dynamics of chemical compounds3,4. Topological indices are numerical values corresponding to the molecular structure of compounds. Various topological indices have been defined, including degree-based, eigenvalue-based, and distance-based indices5. Researchers have found applications for these indices in chemistry, pharmacy, and biology6.
The concept of topological indices was first introduced by Wiener7. Later, Milan Randić8 proposed the Randić index. Amic et al.9 and Bollobas et al.10 subsequently suggested a generalization of the Randić index. In 2010, Trinajstić and Zhou introduced the sum connectivity index11. Zhong12 defined the harmonic index in 2012. Nikolic et al.13 presented a revised version of the second Zagreb index, while Fath-Tabar14 introduced the third Zagreb index in 2011. In 2015, Munir et al.15 converted degree-based indices into entropy measures. Ranjini et al.16 proposed revised Zagreb indices in 2013. Notably, Shannon17 laid the foundation for entropy metrics in 1948.
Researchers initiated investigations into the entropy value of network systems in the late 1950s, inspired by Shannon’s influential work18. Rashevsky employs the concept of entropy measures to quantify the structural complexity of a graph. Shannon’s entropy is employed to quantify the intricacy of the graph in this particular scenario. Mowshowitz19 subsequently conducted an examination of the characteristics of graph entropy and conducted extensive measurements pertaining to his particular application. Entropy indicators based on graphs have been employed in diverse disciplines such as biology, chemistry, and computer science for the purpose of characterizing patterns20. The entropy proposed by Korners21 serves as another notable illustration.
Entropy measures have been developed using several graph invariances, including eigenvalues and connection information22, degree-based graph entropy23, and distance-based graph entropy24. Kulli introduced the concept of reverse degree-based indices25. Many researchers calculate the reverse degree-based indices for certain chemical structures. Wei Gao et al. calculated the indices for dendrimers26. Koam et al. calculated the indices for third type of chain hex-derived network27. Dongming Zhao et al. examine the polycyclic metal-organic network28. For more information about reverse degree-based indices calculations for certain chemical structures, sees29,30,31.
Recently, Furtula et al.32 did an analysis of the popular degree-based indices using the data of the octane isomer. They concluded that the symetric division degree index is the descriptor. Recently, Rauf et al.33 developed the QSPR between degree-based entropy and physical properties. They show that entropy measures are helpful in predicting physical properties. QSPR is a highly effective analytical methodology utilized to transform a given molecule into a series of numerical values that accurately depict its intrinsic chemical and physical characteristics. Several researchers have conducted studies on statistical linear, quadratic, and polynomial regression models to analyze the relationship between indices and physical properties34,35,36.
Motivated by these authors’ works, we have developed the QSPR between the physical properties of cancer drugs and reverse degree-based entropy measures. We found that the entropy measures show the best correlation with physical properties. These results motivate and are helpful for researchers in predicting physical properties.
Degree based entropy of a graph
Let \(Z=(V,E)\) be a finite, simple, and connected graph of order p, size q edges and \(\mathscr {F}\) be a real valued function. The degree of a vertex r is denoted by d(r) and is defined as the number of edges attached with vertex r. Kulli37 introduced the reverse degree \(\Upsilon (r)\) defined as \(\Upsilon (r)= \bigtriangleup (Z)-d(r)+1\), where \(\bigtriangleup (Z)\) is the maximum degree of vertex among the vertices of a graph Z. For the undefined term of graph theory, see38. The entropy function of graph Z is defined as follows:
Now, if \(r_i\in V\) and \(\mathscr {F} (r_i)\) is an information function that represent the degree of vertex \(r_i\), denoted by \(\mathscr {F} (r_i)=\Upsilon (r_i)\), then equation (1) becomes
By simplifying the equation and using \(\sum ^n_{j=1}\Upsilon (r_j)=2q\),
Edge weight-based entropy of graph
In 2014, Chen et al. introduced the concept of the entropy of an edge weight graph. For an edge weight graph \(P=(V(Z);E(Z):\mathscr {F}(rs))\), where E(Z) is the edge set, V(Z) is the vertex set, and \(\mathscr {F}(rs)\) is the edge weight of the edge rs in Z. The entropy is defined as
By using Table 1 and simplifying the equation (3), we can derive the entropy measures written in Table 2.
Methodology
In this section, we present the working methodology employed in this study. In “Hyaluronic acid-paclitaxel conjugate”, we compute the entropy measures for hyaluronic acid-paclitaxel conjugate to estimate their physical properties. The following steps are used to compute the entropy measures:
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We convert the hyaluronic acid-paclitaxel conjugate structure into a molecular graph by considering atoms as vertices and chemical bonds as edges.
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We partition the vertices and edges of the graph based on the reverse degree.
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We compute the entropy measures and plot the graphical representation using Maple software.
In “Statistical analysis of entropy measures”, we develop the statistical analysis of entropy measures. The following steps are used for statistical analysis:
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We consider a specific class of drug.
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We take the chemical structures of the drug and convert them into molecular graphs by considering atoms as vertices and chemical bonds as edges.
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We use newGraph software to compute the adjacency matrix from the graph.
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We propose a Maple-based algorithm to compute the entropy measures based on the adjacency matrix.
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We obtain the physical properties of cancer drugs from https://pubchem.ncbi.nlm.nih.gov/ and https://www.chemspider.com/.
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We develop the statistical analysis between entropy measures and the physical properties using Python.
Hyaluronic acid-paclitaxel conjugate
Cancer is widely recognized as a prominent contributor to global mortality rates, with a persistent upward trend in fatality rates. The primary culprits behind these deaths are breast, stomach, lung, and colon cancers. Despite significant advancements in the field of cancer biology and the development of various therapeutic approaches to combat cancer, there persist challenges in effectively treating both primary and metastatic forms of the disease. Furthermore, it is important to acknowledge the presence of drawbacks in existing anticancer medications, as they often exhibit a lack of specificity and a high level of toxicity, thereby significantly impairing their effectiveness. Significant advancements have been made in the field of molecularly-targeted cancer treatment in recent years.
Hyaluronic acid (HA) is an endogenous compound. The compound in question is a polymer of glycosaminoglycan, consisting of a linear arrangement of D-glucuronic acid and N-acetyl-D-glucosamine units. These units are connected through alternating \(\beta\)-1,4- and \(\beta\)-1,3-glycosidic bonds. The primary structure of the disaccharide is considered to be energetically stable39. Hyaluronic acid (HA) exhibits considerable potential as a cancer therapeutic agent owing to its distinctive properties, including biodegradability, biocompatibility, non-toxicity, hydrophilicity, and non-immunogenicity. Moreover, the overexpression of HA receptors has been observed on numerous tumor cells, further supporting its promise as a cancer drug. Hyaluronic acid (HA) is currently being recognized as a promising platform for effectively targeting cells that overexpress CD44. The primary objective of utilizing HA in this context is to enhance the efficacy of anticancer treatments40,41,42. Hyaluronic acid (HA) exhibits promising characteristics as a drug carrier and drug-targeting agent. Paclitaxel (PTX) is a pharmacological agent that has demonstrated efficacy in the treatment of various malignancies such as bladder, lung, breast, esophageal, ovarian, and prostate cancers, among others43. Although the administration of PTX also faces certain limitations, such as its limited solubility and associated side effects, as well as the excipients commonly employed in its formulation. The initial proposal by Ringsdorf introduced a technique for the synthesis of polymeric macromolecule-drug conjugates. This method was specifically designed to facilitate the targeted delivery of small hydrophobic drug molecules to their intended sites of action44. The primary benefits of HA-PTX conjugates include enhanced water solubility and maintained activity. Moreover, these conjugates can be employed as targeted drug delivery systems to enhance the effectiveness of anti-tumor treatment45,46,47.
Figure 1 shows the unit chemical structures of hyaluronic acid and paclitaxel. Figures 2 and 3 illustrates the molecular graph of hyaluronic acid-paclitaxel conjugate for \(s=1\) and \(s=2\), respectively. If \(s<1\), then it means that hyaluronic acid-paclitaxel conjugate has degraded and as result breakdown into two or more parts (glucuronic acid, N-acetylglucosamine and paclitaxel). If \(s \ge 1\) then it means that the hyaluronic acid-paclitaxel conjugate polymerization has occurred equal to value of s. For example, if \(s=2\) then degree of polymerization is 2.
Main results
Let HA be the molecular structure of hyaluronic acid-paclitaxel conjugate. We partitioned the edges, base on the reverse degree as list in Table 3.
Using Table 3, we will calculate the following entropy measures.
Atom bond connectivity entropy
Geometric arithmetic entropy
First zagreb entropy
Second zagreb entropy
Hyper first zagreb entropy
Forgotten entropy
Graphical representations and numerical values of entropy measures are shown in Fig. 4 and Table 4.
Statistical analysis of entropy measures
Quantitative structure-property relationship (QSPR) studies have emerged as a vital tool in predicting physical properties of molecules using topological indices. These indices, derived from molecular graphs, encode structural information that correlates with physical properties of drugs.
The QSPR between the physical characteristics of cancer medications and their entropy measures is being developed in this area. The cancer medications shown in Fig. 5. To compute the entropy measures, first we convert the chemical structure of drugs into molecular graph given in Fig. 6. The entropy measures value given in Table 5 and the physical properties in Table 6.
To propose the relationship between entropy measures and the physical properties of cancer drug, multiple linear (MLR), Ridge (RR), Lasso (LR), ElasticNet (ENR) and Support Vector regression (SVR) are used. We calculate the only correlation coefficient, coefficient of determination and mean squared error to decide that which model predict the desire physical property listed in Tables 7, 8, 9, 10, 11, 12, 13, 14, 15, 16 and 17.
By using Multiple Linear, Ridge, Lasso, Elastic Net, and Support Vector regression, we proposed the models against each physical property for boiling point (BP), enthalpy of vaporization (EoV), flash point (FP), molar refractivity (MR), molar volume (MV), polarization (P), molecular weight (MW), monoisotopic mass (MM), topological polar surface area (TPSA) and complexity (C). Here we are writing only those model that shows the most significant relationship.
Discussion
Entropy measures are used to predict the physical and chemical properties of drugs or chemical compounds. In “Hyaluronic acid-paclitaxel conjugate”, we computed the reverse degree-based entropy measures for hyaluronic acid-paclitaxel conjugate for \(s \ge 1\). Table 4 shows the numerical comparisons of reverse degree-based entropy measures for small values of s for hyaluronic acid-paclitaxel conjugate. Figure 4 demonstrates that all entropy measures exhibit an upward trend as the value of s increases. These results will be helpful to the pharmaceutical industry.
In “Statistical analysis of entropy measures”, we propose a statistical analysis of reverse degree-based entropy measures using the physical properties of cancer drugs. We find that the reverse degree-based entropy measures show a significant relationship with the physical properties. We employ Multiple Linear, Ridge, Lasso, Elastic Net, and Support Vector regression to examine the relationship between entropy measures and physical properties. All the computed results are listed in Tables 7, 8, 9, 10, 11, 12, 13, 14, 15, 16 and 17. Additionally, we propose the model for each relationship and include only the most significant models that will be used to estimate those physical properties that have not yet been calculated. We examine the following relationships:
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Table 7 presents a comparative analysis of various regression models, highlighting their differences in predictive capabilities. The results indicate that Multiple Linear Regression exhibits the weakest performance, characterized by a relatively low coefficient of determination (\(R^2 = 0.228\)) and the highest mean squared error (MSE = 100534.7691), suggesting a poorer fit and higher prediction errors. In contrast, Ridge and Lasso Regression demonstrate significant improvements, with \(R^2\) values of 0.997 and 0.997, respectively. These models also exhibit substantially lower MSEs, indicating their superior ability to capture the relationship between entropy measures and the boiling point. Notably, ElasticNet Regression achieves a high \(R^2\) of 0.998 and the lowest MSE among the models (3349.7946), striking a balance between prediction accuracy and generalization. Support Vector Regression (SVR) yields the highest MSE (8921.9773), indicating low predictive power, although its \(R^2=0.986\) is slightly lower than the other models, implying a potential trade-off in explaining data variability. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for boiling point. The Lasso Regression model for boiling point is presented in Eq. (4).
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Table 8 presents a comparative analysis of regression models, highlighting their differences in predictive capabilities. The results indicate that Multiple Linear Regression exhibits the weakest performance, characterized by a relatively low coefficient of determination and the highest mean squared error. This means the model is a poorer fit and has higher prediction errors. In contrast, Ridge, Lasso and ElasticNet Regression demonstrate significant improvements, with the same \(R^2\) value of 0.998 and lower MSEs of 48.2737, 49.7108 and 51.3297, respectively. Ridge Regression achieves a high \(R^2\) and the lowest MSE among the models, striking a balance between prediction accuracy and generalization. Support Vector Regression yields that \(R^2=0.984\) is slightly lowest than the other models and the highest MSE (139.9596), indicating the model is a poorer fit and has higher prediction errors. Overall, Ridge Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for enthalpy of vaporization. Ridge Regression model for enthalpy of vaporization is presented in Eq. (5).
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Table 9 presents a comparative analysis of regression models for flash point. The results indicate that Multiple Linear Regression exhibits the weakest performance, characterized by a relatively low coefficient of determination and the highest mean squared error. In contrast, Lasso Regression demonstrates significant improvements, with \(R^2\) value of 0.938 and lower MSE of 25416.2368. On the other hand, Ridge, ElasticNet, and Support Vector Regression yield that \(R^2\) values are slightly lower than the Lasso Regression and the highest MSEs, indicating the models are poorer fit and have higher prediction errors. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for flash point. The Lasso Regression model for flash point is presented in Eq. (6).
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Table 10 presents a comparative analysis of regression models for molar refractivity. The results indicate that Multiple Linear Regression exhibits the weakest performance, characterized by a relatively low coefficient of determination and the highest mean squared error. In contrast, Ridge and Lasso Regression demonstrate significant improvements, with \(R^2\) values of 0.813 and 0.824, respectively and with lower MSEs. Notably, ElasticNet Regression achieves a high \(R^2\) of 0.825 and the lowest MSE among the models (250.6917), striking a balance between prediction accuracy and generalization. Support Vector Regression (SVR) yields the highest MSE (1256.6219), indicating low predictions, although its \(R^2\) is slightly lower than the other models, implying a potential trade-off in explaining data variability. Overall, ElasticNet is preferred for maximizing explanatory power while maintaining good prediction accuracy for molar refractivity. ElasticNet Regression model for molar refractivity is presented in Eq. (7).
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Table 11 presents a comparative analysis of regression models for molar volume. The results indicate that Multiple Linear, Ridge, ElasticNet and vector Support Regression exhibit the weakest performances, characterized by a relatively low coefficient of determination and the highest mean squared errors. In contrast, Lasso Regression demonstrates significant improvements, with a \(R^2\) value of 1.000 and with lower MSE among the models, striking a balance between prediction accuracy and generalization. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for molar volume. The Lasso Regression model for molar volume is presented in Eq. (8).
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Table 12 presents a comparative analysis of regression models for polarization. The results indicate that Multiple Linear and Support Vector Regression exhibits the weakest performances, characterized by a relatively low coefficient of determination and the highest mean squared error. In contrast, Ridge, Lasso and ElasticNet Regression demonstrate significant improvements, with \(R^2\) values of 0.817, 0.828 and 0.829, and lower MSEs of 39.9896, 39.0514 and 39.6940, respectively. Lasso Regression achieves the lowest MSE among the models, striking a balance between prediction accuracy and generalization. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for polarization and no multicollinearity. Ridge Regression model for polarization is presented in Eq. (9).
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Table 13 presents a comparative analysis of regression models for molecular weight. The results indicate that Multiple Linear, Lasso, and Vector Support Regression exhibits the weakest performances, characterized by the highest mean squared errors. In contrast, Ridge Regression and ElasticNet demonstrate significant improvements, with \(R^2\) values of 1.000 and 0.999 with lower MSEs 885.8908 and 897.8231 among the models, striking a balance between prediction accuracy and generalization. Overall, Ridge Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for molecular weight. Ridge Regression model for molecular weight is presented in Eq. (10).
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Table 14 presents a comparative analysis of regression models for monoisotopic mass. The results indicate that Multiple Linear, Lasso, and Vector Support Regression exhibits the weakest performances, characterized by the highest mean squared errors. In contrast, Ridge and ElasticNet Regression demonstrate significant improvements, with \(R^2\) values of 1.000 and 0.999 with lower MSEs 887.2696 and 899.1999 among the models, striking a balance between prediction accuracy and generalization. Overall, Ridge Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for monoisotopic mass. Ridge Regression model for monoisotopic mass is presented in Eq. (11).
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Table 15 presents a comparative analysis of regression models for topological polar surface area. The results indicate that Multiple Linear Regression exhibits the highest performance, characterized by a relatively high coefficient of determination (\(R^2=996\)). In contrast, Ridge, Lasso, ElasticNet and Support Vector Regression demonstrate the lowest performance, characterized by a relatively low coefficient of determination. Overall, Multiple Linear Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for topological polar surface area. Multiple Linear Regression model for topological polar surface area is presented in Eq. (12).
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Table 16 presents a comparative analysis of regression models for heavy atom count. The results indicate that Multiple Linear and Support Vector Regression exhibits the weakest performances, characterized by a relatively low coefficient of determination and the highest mean squared error. In contrast, Ridge, Lasso and ElasticNet Regression demonstrate significant improvements, with \(R^2\) values of 0.995, 0.996 and 0.996, and lower MSEs of 8.9858, 9.0149 and 9.2303, respectively. Lasso Regression achieves the highest \(R^2\) value among the models, striking a balance between prediction accuracy and generalization. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for heavy atom count. Models for heavy atom count are presented in Eqs. (13)–(15). However, the best model is the Lasso Regression model (Eq. 15), as it does not exhibit multicollinearity.
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Table 17 presents a comparative analysis of regression models for complexity. The results indicate that Multiple Linear, Ridge, ElasticNet and Vector Support Regression exhibits the weakest performances, characterized by low coefficient of determination and highest mean squared errors. In contrast, Lasso Regression demonstrates significant improvements, with \(R^2\) value of 0.993 with lower MSE 11751.3839 among the models, striking a balance between prediction accuracy and generalization. Overall, Lasso Regression is preferred for maximizing explanatory power while maintaining good prediction accuracy for complexity. The Lasso Regression model for complexity is presented in Eq. (16).
Based on the above results and their explanations, we can conclude that the physical properties, such as boiling point, enthalpy of vaporization, flash point, molar refractivity, molar volume, polarization, molecular weight, monoisotopic mass, topological polar surface area, and complexity, can be predicted using the reverse entropy measures.
Conclusion
Entropy measures are utilized to predict physical and chemical properties of drugs. In this study, we computed entropy measures for the hyaluronic acid-paclitaxel conjugate. The results exhibited numerical values that demonstrated the effectiveness of entropy measures. The utilization of reverse degree-based entropy measures proved valuable in quantitative structure-property relationship (QSPR) investigations as predictive measures. This investigation focused on assessing the predictive ability of entropy measures by analyzing the physical properties of cancer drugs. The obtained findings demonstrated a robust positive correlation between the boiling point, enthalpy of vaporization, flash point, molar refractivity, molar volume, polarization, molecular weight, monoisotopic mass, topological polar surface area, complexity, and entropy measures. Our analysis determined that the entropy measures \(\mathscr {E}_{R_{1}}\), \(\mathscr {E}_{R_{-1}}\), \(\mathscr {E}_{R_{\frac{1}{2}}}\), \(\mathscr {E}_{R_{\frac{-1}{2}}}\), \(\mathscr {E}_{ABC}\), \(\mathscr {E}_{GA}\), \(\mathscr {E}_{M_1}\), \(\mathscr {E}_{M_2}\), \(\mathscr {E}_{AZI}\), \(\mathscr {E}_{HM_1}\), \(\mathscr {E}_{F}\), \(\mathscr {E}_{J}\), \(\mathscr {E}_{ReZG_1}\), \(\mathscr {E}_{ReZG_2}\), and \(\mathscr {E}_{ReZG_3}\) can be used for predicting physical properties. We developed a predictive model for each relationship and selected only the most significant models to estimate physical properties that have not yet been calculated.
Data availability
All data generated or analysed during this study are included in this published article.
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Acknowledgements
The authors gratefully acknowledge the funding of the Deanship of Graduate Studies and Scientific Research, Jazan University, Saudi Arabia, through Project Number: GSSRD-24
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Tawhari, Q.M., Naeem, M., Rauf, A. et al. Modeling and estimation of physiochemical properties of cancer drugs using entropy measures. Sci Rep 15, 4785 (2025). https://doi.org/10.1038/s41598-025-87755-5
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DOI: https://doi.org/10.1038/s41598-025-87755-5








