Network pharmacology and bioinformatics analysis of the mechanism of kaempferol in the treatment of breast cancer and construction of a mechanism-related prognostic model
Author:
Affiliation:

Department of Breast and Thyroid Surgery, the First Affiliated Hospital of Hunan Normal University/Hunan Provincial People's Hospital, Changsha410005, China

Clc Number:

R737.9

  • Article
  • |
  • Figures
  • |
  • Metrics
  • | |
  • Related
  • | | |
  • Comments
    Abstract:

    Background and Aims Kaempferol is a natural flavonoid compound that can regulate various processes and activities associated with cancer, such as the cell cycle, oxidative stress, apoptosis, proliferation, metastasis, and angiogenesis. Its potential for treating breast cancer has been validated in some studies, but its mechanism of action remains unclear. Therefore, this study was conducted to explore the potential targets and pathways of kaempferol in the treatment of breast cancer and establish a prognostic model.Methods Using network pharmacology and bioinformatics approaches, the intersection targets of kaempferol for the treatment of breast cancer were obtained from databases such as HERB, GeneCards, STRING, PubChem, RCSB PDB, and TCGA. Protein interaction, GO analysis, and KEGG pathway enrichment analysis were performed, followed by molecular docking for validation. Prognostic-related genes were identified through LASSO-Cox regression analysis to establish a risk score model. The prognostic analysis for each gene, and the correlation between risk score and immune infiltration were analyzed.Results Network pharmacology analysis identified 55 intersection targets. Protein interaction analysis revealed five potential key genes (Akt1, Bcl2, CASP3, ESR1, AR). GO analysis showed that kaempferol treatment of breast cancer involved 1 604 biological process entries, 20 cellular component entries, and 121 molecular function entries. KEGG pathway enrichment mainly included pathways related to chemical carcinogenesis, reactive oxygen species signaling, AGE-RAGE signaling in diabetic complications, TNF signaling, and IL-17 signaling. Molecular docking results indicated that kaempferol had a strong affinity for key targets, with the best binding effect observed with ESR1 (-9.1 kcal/mol). Ten prognostic genes (Bcl2, CYP1B1, DPP4, GSTM1, GSTM2, MMP1, NCOA2, NOS2, NR1I3, PTGS2) were obtained through LASSO-Cox regression analysis, and a risk score model was established. The AUC of this model for predicting breast cancer patient prognosis was greater than 0.5. Single-gene survival analysis indicated that higher expression of Bcl2 (HR=0.61, 95% CI=0.43-0.86, P=0.005), CYP1B1 (HR=0.68, 95% CI=0.49-0.94, P=0.022), GSTM1 (HR=0.68, 95% CI=0.47-0.98, P=0.037), GSTM2 (HR=0.64, 95% CI=0.46-0.90, P=0.010), and PTGS2 (HR=0.62, 95% CI=0.44-0.86, P=0.005) correlated with a higher overall survival (OS), while higher expression of MMP1 (HR=1.72, 95% CI=1.22-2.41, P=0.002), NCOA2 (HR=1.71, 95% CI=1.12-2.60, P=0.013), NOS2 (HR=1.67, 95% CI=1.20-2.32, P=0.002), and NR1I3 (HR=1.69, 95% CI=1.21-2.37, P=0.002) was associated with worse OS. The risk score was negatively correlated with the infiltration of T cells, CD8+ T cells, myeloid dendritic cells, NK cells, and B cells, and positively correlated with monocyte/macrophage infiltration (all P<0.05).Conclusion Kaempferol exerts therapeutic effects on breast cancer through multiple targets and pathways. The prognostic genes identified based on its related targets, along with the established prognostic model, can guide clinical treatment of breast cancer. The correlation between the prognostic model and immune infiltration provides direction for future experimental studies.

    表 1 TCGA数据库962例乳腺癌患者的临床与生存信息[n(%)]Table 1 Clinical and survival information of 962 breast cancer patients from the TCGA database [n (%)]
    表 2 核心靶点及其度值Table 2 Core targets and their degree values
    表 3 山柰酚与核心靶点的分子对接结果Table 3 Molecular docking results of kaempferol with core targets
    图1 山柰酚与乳腺癌交集靶点韦恩图Fig.1 Venn chart of the overlapping of kaempferol and breast cancer
    图2 山柰酚-靶点相互作用网络图Fig.2 Kaempferol-target interaction network
    图3 山柰酚治疗乳腺癌靶点PPI网络Fig.3 PPI network of kaempferol targets in the treatment of breast cancer
    图4 GO分析 A:BP气泡图;B:CC气泡图;C:MF气泡图Fig.4 GO analysis A: BP bubble chart; B: CC bubble chart; C: MF bubble chart
    图5 KEGG分析Fig.5 KEGG analysis
    图6 山柰酚与核心靶点的分子对接Fig.6 Molecular docking of kaempferol to core targets
    图7 LASSO-Cox预后回归筛选风险变量 A:LASSO-Cox回归结果;B:交叉验证图Fig.7 LASSO-Cox prognostic regression to select risk variables A: LASSO-Cox regression results; B: Cross-validation graph
    图8 乳腺癌患者高危组与低危组生存曲线Fig.8 Survival curves of breast cancer patients in high-risk and low-risk groups
    图9 ROC曲线验证预后回归模型的准确性Fig.9 ROC curve to validate the accuracy of the prognostic regression model
    图10 风险曲线、风险和生存散点图Fig.10 Risk curve, risk, and survival scatter plot
    图11 预后基因的表达热图Fig.11 Heatmap of the expression of prognostic genes
    图12 单基因表达与乳腺癌预后关系Fig.12 Relationship between single gene expression and breast cancer prognosis
    图13 风险评分与免疫细胞浸润相关性的散点图Fig.13 Scatter plot of the correlation between risk score and immune cell infiltration
    图1 山柰酚与乳腺癌交集靶点韦恩图Fig.1 Venn chart of the overlapping of kaempferol and breast cancer
    图2 山柰酚-靶点相互作用网络图Fig.2 Kaempferol-target interaction network
    图3 山柰酚治疗乳腺癌靶点PPI网络Fig.3 PPI network of kaempferol targets in the treatment of breast cancer
    图4 GO分析 A:BP气泡图;B:CC气泡图;C:MF气泡图Fig.4 GO analysis A: BP bubble chart; B: CC bubble chart; C: MF bubble chart
    图5 KEGG分析Fig.5 KEGG analysis
    图6 山柰酚与核心靶点的分子对接Fig.6 Molecular docking of kaempferol to core targets
    图7 LASSO-Cox预后回归筛选风险变量 A:LASSO-Cox回归结果;B:交叉验证图Fig.7 LASSO-Cox prognostic regression to select risk variables A: LASSO-Cox regression results; B: Cross-validation graph
    图8 乳腺癌患者高危组与低危组生存曲线Fig.8 Survival curves of breast cancer patients in high-risk and low-risk groups
    图9 ROC曲线验证预后回归模型的准确性Fig.9 ROC curve to validate the accuracy of the prognostic regression model
    图10 风险曲线、风险和生存散点图Fig.10 Risk curve, risk, and survival scatter plot
    图11 预后基因的表达热图Fig.11 Heatmap of the expression of prognostic genes
    图12 单基因表达与乳腺癌预后关系Fig.12 Relationship between single gene expression and breast cancer prognosis
    图13 风险评分与免疫细胞浸润相关性的散点图Fig.13 Scatter plot of the correlation between risk score and immune cell infiltration
    Reference
    Cited by
    Comments
    Comments
    分享到微博
    Submit
Get Citation

XIAO Meiling, YI Jia'ning, YANG Xiaochen, YU Jie, HUANG Ting, ZENG Jie. Network pharmacology and bioinformatics analysis of the mechanism of kaempferol in the treatment of breast cancer and construction of a mechanism-related prognostic model[J]. Chin J Gen Surg,2024,33(11):1854-1865.
DOI:10.7659/j. issn.1005-6947.2024.11.012

Copy
Share
Article Metrics
  • Abstract:
  • PDF:
  • HTML:
  • Cited by:
History
  • Received:August 06,2024
  • Revised:November 22,2024
  • Online: December 18,2024