Mechanisms underlying the therapeutic effects of Qingfeiyin in treating acute lung injury based on GEO datasets, network pharmacology and molecular docking

Wang, Ying; Yuan, Yuan; Wang, Wenting; He, Ying; Zhong, Hong; Zhou, Xin; Chen, Yong; Cai, Xinjun; Liu, Liqin

doi:10.1016/j.compbiomed.2022.105454

Cited by 98 publications

(44 citation statements)

References 59 publications

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“…For the analysis of transcriptome high‐throughput sequencing data, the limma package in R language was used to identify differentially expressed genes (DEGs) among the oe‐NC, oe‐MIR143HG, and oe‐MIR143HG + oe‐HOXB7 groups, with the thresholds set at p adj < .05 and |logFC| > 1. The intersection of DEGs between oe‐MIR143HG and oe‐MIR143HG + oe‐HOXB7 groups was obtained, and these genes were identified as the intersection genes 34 …”

Section: Methodsmentioning

confidence: 99%

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MIR143HG promotes methylation of transcription factor HOXB7 promoter by recruiting methyltransferase DNMT1 to prevent the progression of colon cancer

Zhu,

Xu,

et al. 2023

The FASEB Journal

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In recent years, accumulating evidence has demonstrated the role of long noncoding RNAs (lncRNAs) in colon cancer. We aim to investigate the role of MIR143HG, also known as CARMN (Cardiac mesoderm enhancer‐associated noncoding RNA) in colon cancer and explore the related mechanisms. An RNAseq data analysis was performed to screen differentially expressed lncRNAs associated with colon cancer. Next, MIR143HG expression was quantified in colon cancer cells. Moreover, the contributory roles of MIR143HG in the progression of colon cancer with the involvement of DNMT1 and HOXB7 (Homeobox B7) were evaluated after restored MIR143HG or depleted HOXB7. Finally, the effects of MIR143HG were investigated in vivo by measuring tumor formation in nude mice. High‐throughput transcriptome sequencing was employed to validate the specific mechanisms by which MIR143HG and HOXB7 affect tumor growth in vivo. MIR143HG was found to be poorly expressed, while HOXB7 was highly expressed in colon cancer. MIR143HG could promote HOXB7 methylation by recruiting DNMT1 to reduce HOXB7 expression. Upregulation of MIR143HG or downregulation of HOXB7 inhibited cell proliferation, invasion and migration and facilitated apoptosis in colon cancer cells so as to delay the progression of colon cancer. The same trend was identified in vivo. Our study provides evidence that restoration of MIR143HG suppressed the progression of colon cancer via downregulation of HOXB7 through DNMT1‐mediated HOXB7 promoter methylation. Thus, MIR143HG may be a potential candidate for the treatment of colon cancer.

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Section: Methodsmentioning

confidence: 99%

“…The intersection of DEGs between oe-MIR143HG and oe-MIR143HG + oe-HOXB7 groups was obtained, and these genes were identified as the intersection genes. 34…”

Section: Quality Control and Differential Analysis Of Sequencing Datamentioning

confidence: 99%

MIR143HG promotes methylation of transcription factor HOXB7 promoter by recruiting methyltransferase DNMT1 to prevent the progression of colon cancer

Zhu,

Xu,

et al. 2023

The FASEB Journal

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“…The mRNA expression profile of an obese T2DM sample (GSE166467) was searched in the gene expression synthesis dataset (GEO: https://www.ncbi.nlm.nih.gov/GEO ) [ 20 ]. The threshold for identifying differentially expressed genes (DEGs) using SVA and Limma packages in RStudio 4.2.1 ( https://www.rstudio.com/products/rstudio/ ) was |log FC| > 1, P < 0.05 [ 21 ].…”

Section: Methodsmentioning

confidence: 99%

Exploring the Active Ingredients and Mechanism of Action of Huanglian Huazhuo Capsule for the Treatment of Obese Type-2 Diabetes Mellitus Based on Using Network Pharmacology and Molecular Docking

Wang

Zhou

et al. 2022

Evidence-Based Complementary and Alternative Medicine

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Background. Obese type 2 diabetes mellitus (obese T2DM) is one of the prime diseases that endangers human health. Clinical studies have confirmed the ability of the Huanglian Huazhuo capsule to treat obese T2DM; however, its mechanism of action is still unclear. In this study, effects and mechanisms of the Huanglian Huazhuo capsule in obese T2DM were systematically investigated using network pharmacology and molecular docking techniques. Methods. The active ingredients and targets of the Huanglian Huazhuo capsule were extracted from Traditional Chinese Medicine Systems Pharmacology Database and Analysis Platform (TCMSP). Obese T2DM diabetes-related targets were retrieved from a geographic dataset combined with a gene card database. A protein-protein interaction (PPI) network was constructed to screen core targets. The Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using Database for Annotation Visualization and Integrated Discovery (DAVID). Interactions between potential targets and active compounds were assessed using molecular docking. Molecular docking was performed on the best core protein complexes obtained using molecular docking. Results. A total of 89 and 108 active ingredients and targets, respectively, were identified. Seven core targets were obtained using a topological analysis of the PPI network. The GO and KEGG pathway enrichment analyses showed that the effects of the Huanglian Huazhuo capsules were mediated by inflammation, lipid response, oxidative stress-related genes, and HIF-1 and IL-17 signaling pathways. Good binding ability was observed between the active compounds and screened targets using molecular docking. Conclusions. The active ingredients, potential targets, and pathways of the Huanglian Huazhuo capsule for the treatment of obese T2DM were successfully predicted, providing a new strategy for further investigation of its molecular mechanisms. In addition, the potential active ingredients provide a reliable source for drug screening in obese T2DM.

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“…Using "Oxidation damage" and "Coronary Heart Disease" as the search keywords, we searched the GeneCards database (https://www.gene-cards.org) (Yu et al, 2022), and OMIM database (http://www.omim.org) (Wang et al, 2022b), to obtain potential targets associated with OD-CHD. The two disease database targets were combined and the repeat value was deleted to get the OD-CHD related targets.…”

Section: Od-chd Related Targets Gene Screeningmentioning

confidence: 99%

Using integrated GC-MS analysis, in vitro experiments, network pharmacology: exploring migao fatty oil active components/mechanisms against coronary heart disease

et al. 2022

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Coronary heart disease (CHD) is one of the main diseases causing morbidity and mortality globally, with oxidative damage and lipid peroxidation associated with oxidative stress and atherosclerosis. Cinnamomum migao is a Miao ethnomedicine that has been shown to provide relief from CHD symptoms. A gas chromatograph-mass spectrometer (GC-MS) was used to determine the chemical components of ten batches of migao fatty oil (MFO), yielding a total of 35 chemical constituents. The antioxidant activity of MFO in vitro was assessed using the DPPH• and ABTS• + assay methods, and both indicated good antioxidant activity. The network pharmacology predicted the active constituents of MFO and their therapeutic influence on the mechanism of oxidative damage-induced coronary heart disease (OD-CHD). Six compounds were discovered in MFO, including tau-cadinol acetate and dodecanoic acid, which may play a role in OD-CHD by acting on lipids and atherosclerosis, the PI3K-Akt signalling pathway, and other pathways. In conclusion, our study lays the foundation for investigating the use of MFO in the treatment of OD-CHD.

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Mechanisms underlying the therapeutic effects of Qingfeiyin in treating acute lung injury based on GEO datasets, network pharmacology and molecular docking

Cited by 98 publications

References 59 publications

MIR143HG promotes methylation of transcription factor HOXB7 promoter by recruiting methyltransferase DNMT1 to prevent the progression of colon cancer

MIR143HG promotes methylation of transcription factor HOXB7 promoter by recruiting methyltransferase DNMT1 to prevent the progression of colon cancer

Exploring the Active Ingredients and Mechanism of Action of Huanglian Huazhuo Capsule for the Treatment of Obese Type-2 Diabetes Mellitus Based on Using Network Pharmacology and Molecular Docking

Using integrated GC-MS analysis, in vitro experiments, network pharmacology: exploring migao fatty oil active components/mechanisms against coronary heart disease

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