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Integrated Network Pharmacology, Machine Learning and Experimental Validation to Identify the Key Targets and Compounds of for the Treatment of Breast Cancer.

作者信息

Ying Huiyan, Kong Weikaixin, Xu Xiangwei

机构信息

Institute for Molecular Medicine Finland (FIMM), Hilife, University of Helsinki, Helsinki, Finland.

Department of Molecular and Cellular Pharmacology, School of Pharmaceutical Sciences, Peking University Health Science Center, Beijing, People's Republic of China.

出版信息

Onco Targets Ther. 2025 Jan 16;18:49-71. doi: 10.2147/OTT.S486300. eCollection 2025.


DOI:10.2147/OTT.S486300
PMID:39835272
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11745062/
Abstract

BACKGROUND: TiaoShenGongJian (TSGJ) decoction, a traditional Chinese medicine for breast cancer, has unknown active compounds, targets, and mechanisms. This study identifies TSGJ's key targets and compounds for breast cancer treatment through network pharmacology, machine learning, and experimental validation. METHODS: Bioactive components and targets of TSGJ were identified from the TCMSP database, and breast cancer-related targets from GeneCards, PharmGkb, and RNA-seq datasets. Intersection of these targets revealed therapeutic targets of TSGJ. PPI analysis was performed via STRING, and machine learning methods (SVM, RF, GLM, XGBoost) identified key targets, validated by GSE70905, GSE70947, GSE22820, and TCGA-BRCA datasets. Pathway analyses and molecular docking were performed. TSGJ and core compounds' effectiveness was confirmed by MTT and RT-qPCR assays. RESULTS: 160 common targets of TSGJ were identified, with 30 hub targets from PPI analysis. Five predictive targets (HIF1A, CASP8, FOS, EGFR, PPARG) were screened via SVM. Their diagnostic, biomarker, immune, and clinical values were validated. Quercetin, luteolin, and baicalein were identified as core components. Molecular docking confirmed their strong affinities with predicted targets. These compounds modulated key targets and induced cytotoxicity in breast cancer cell lines in a similar way as TSGJ. CONCLUSION: This study reveals the main active components and targets of TSGJ against breast cancer, supporting its potential for breast cancer prevention and treatment.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/6fead3b5088d/OTT-18-49-g0010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/437f7a9cec65/OTT-18-49-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/b5530a030ea9/OTT-18-49-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/57e893464e4f/OTT-18-49-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/8e7801860f9b/OTT-18-49-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/df4b382caded/OTT-18-49-g0005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/e6f29062dbff/OTT-18-49-g0006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/7f05f4b4f8f7/OTT-18-49-g0007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/6cd093fecef3/OTT-18-49-g0008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/9430d3c3b6c5/OTT-18-49-g0009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/6fead3b5088d/OTT-18-49-g0010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/437f7a9cec65/OTT-18-49-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/b5530a030ea9/OTT-18-49-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/57e893464e4f/OTT-18-49-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/8e7801860f9b/OTT-18-49-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/df4b382caded/OTT-18-49-g0005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/e6f29062dbff/OTT-18-49-g0006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/7f05f4b4f8f7/OTT-18-49-g0007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/6cd093fecef3/OTT-18-49-g0008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/9430d3c3b6c5/OTT-18-49-g0009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/23ba/11745062/6fead3b5088d/OTT-18-49-g0010.jpg

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本文引用的文献

[1]
Integrated Network Pharmacology and Experimental Validation Approach to Investigate the Mechanisms of Radix Rehmanniae Praeparata - Angelica Sinensis - Radix Achyranthis Bidentatae in Treating Knee Osteoarthritis.

Drug Des Devel Ther. 2024

[2]
Machine learning algorithms for a novel cuproptosis-related gene signature of diagnostic and immune infiltration in endometriosis.

Sci Rep. 2023-12-7

[3]
HOXD9/miR-451a/PSMB8 axis is implicated in the regulation of cell proliferation and metastasis via PI3K/AKT signaling pathway in human anaplastic thyroid carcinoma.

J Transl Med. 2023-11-16

[4]
Advances in immunotherapy for triple-negative breast cancer.

Mol Cancer. 2023-9-2

[5]
Identification of the susceptible genes and mechanism underlying the comorbid presence of coronary artery disease and rheumatoid arthritis: a network modularization analysis.

BMC Genomics. 2023-7-20

[6]
Loss of function of GATA3 regulates FRA1 and c-FOS to activate EMT and promote mammary tumorigenesis and metastasis.

Cell Death Dis. 2023-6-23

[7]
Screening of immune-related secretory proteins linking chronic kidney disease with calcific aortic valve disease based on comprehensive bioinformatics analysis and machine learning.

J Transl Med. 2023-6-1

[8]
Machine learning in TCM with natural products and molecules: current status and future perspectives.

Chin Med. 2023-4-20

[9]
Identification and validation of cuproptosis related genes and signature markers in bronchopulmonary dysplasia disease using bioinformatics analysis and machine learning.

BMC Med Inform Decis Mak. 2023-4-14

[10]
Assessment of palmitic acid toxicity to animal hearts and other major organs based on acute toxicity, network pharmacology, and molecular docking.

Comput Biol Med. 2023-5

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