RNA Sequencing Uncovers Molecular Mechanisms Underlying Pathological Complete Response to Chemotherapy in Patients with Operable Breast Cancer

Li, Yongfeng; Liu, Xiaozhen; Tang, Hongchao; Yang, Huanming; Meng, Xuli

doi:10.12659/msm.903272

Cited by 19 publications

(17 citation statements)

References 31 publications

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“…As one of the most common pathways of malignancies, the pathway of ‘Neuroactive ligand-receptor interaction’ ranks fifth in genes with mutation in the central nervous system (61). A previous study reported that low expression of cannabinoid receptor-1 (CNR1), part of the neuroactive ligand-receptor interaction pathway, indicated that breast cancer patients may benefit from chemotherapy (62). Notably, this CNR1 was among the 1,237 DEGs following cinobufotalin treatment in breast cancer cells.…”

Section: Discussionmentioning

confidence: 99%

“…Notably, this CNR1 was among the 1,237 DEGs following cinobufotalin treatment in breast cancer cells. In addition, this pathway was reported to serve a vital role in tumorigenesis and chemotherapy for breast cancer (62,63), which suggested that cinobufotalin may exhibit its curative potential for breast cancer by influencing the neuroactive ligand-receptor interaction pathway. The co-treatment of cinobufotalin to chemotherapeutics may induce a synergistic effect by suppressing the neuroactive ligand-receptor interaction pathway.…”

Section: Discussionmentioning

confidence: 99%

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Differentially expressed gene profile and relevant pathways of the traditional Chinese medicine cinobufotalin on MCF‑7 breast cancer cells

Rong²,

Dang

et al. 2019

Mol Med Report

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Cinobufotalin is a chemical compound extracted from the skin of dried bufo toads that may have curative potential for certain malignancies through different mechanisms; however, these mechanisms remain unexplored in breast cancer. The aim of the present study was to investigate the antitumor mechanism of cinobufotalin in breast cancer by using microarray data and in silico analysis. The microarray data set GSE85871, in which cinobufotalin exerted influences on the MCF-7 breast cancer cells, was acquired from the Gene Expression Omnibus database, and the differentially expressed genes (DEGs) were analyzed. Subsequently, protein interaction analysis was conducted, which clarified the clinical significance of core genes, and Gene Ontology and Kyoto Encyclopedia of Genes and Genomes were used to analyze cinobufotalin-related pathways. The Connectivity Map (CMAP) database was used to select existing compounds that exhibited curative properties similar to those of cinobufotalin. A total of 1,237 DEGs were identified from breast cancer cells that were treated with cinobufotalin. Two core genes, SRC proto-oncogene non-receptor tyrosine kinase and cyclin-dependent kinase inhibitor 2A, were identified as serving a vital role in the onset and development of breast cancer, and their expression levels were markedly reduced following cinobufotalin treatment as detected by the microarray of GSE85871. It also was revealed that the ‘neuroactive ligand-receptor interaction’ and ‘calcium signaling’ pathways may be crucial for cinobufotalin to perform its functions in breast cancer. Conducting a matching search in CMAP, miconazole and cinobufotalin were indicated to possessed similar molecular mechanisms. In conclusion, cinobufotalin may serve as an effective compound for the treatment of a subtype of breast cancer that is triple positive for the presence of estrogen, progesterone and human epidermal growth factor receptor-2 receptors, and its mechanism may be related to different pathways. In addition, cinobufotalin is likely to exert its antitumor influences in a similar way as miconazole in MCF-7 cells.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Differentially expressed gene profile and relevant pathways of the traditional Chinese medicine cinobufotalin on MCF‑7 breast cancer cells

Rong²,

Dang

et al. 2019

Mol Med Report

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“…VAX2 is found to be a transcription factor that regulates 3 genes ( PLCB4 , ADCY6 , and CNR1 ) in RNA tissue in response to chemotherapy in patients with operable breast cancer. 24…”

Section: Biological Insightmentioning

confidence: 99%

“…VAX2 is found to be a transcription factor that regulates 3 genes (PLCB4, ADCY6, and CNR1) in RNA tissue in response to chemotherapy in patients with operable breast cancer. 24 MAF1 displays tumor suppressor activity. Surprisingly, blocking the synthesis of ribosomal RNA and transfer RNAs is insufficient to account for MAF1's tumor suppressor function.…”

Section: Biological Insightmentioning

confidence: 99%

A Novel Approach for Identifying Relevant Genes for Breast Cancer Survivability on Specific Therapies

Tabl

Alkhateeb

Pham

et al. 2018

Evol Bioinform Online

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Analyzing the genetic activity of breast cancer survival for a specific type of therapy provides a better understanding of the body response to the treatment and helps select the best course of action and while leading to the design of drugs based on gene activity. In this work, we use supervised and nonsupervised machine learning methods to deal with a multiclass classification problem in which we label the samples based on the combination of the 5-year survivability and treatment; we focus on hormone therapy, radiotherapy, and surgery. The proposed nonsupervised hierarchical models are created to find the highest separability between combinations of the classes. The supervised model consists of a combination of feature selection techniques and efficient classifiers used to find a potential set of biomarker genes specific to response to therapy. The results show that different models achieve different performance scores with accuracies ranging from 80.9% to 100%. We have investigated the roles of many biomarkers through the literature and found that some of the discriminative genes in the computational model such as ZC3H11A, VAX2, MAF1, and ZFP91 are related to breast cancer and other types of cancer.

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“…Oxidative phosphorylation was found to be a crucial pathway in cancer progression 26,27 (Figure S1). Meanwhile, we found that these dysregulated peptides are involved in retrograde endocannabinoid signaling which have been proved to play an important role in multiple cancer progression [28][29][30] (Figure S2). These results showed that the dysregulated peptides might play an important role in BC.…”

mentioning

confidence: 99%

<p>Profiling Analysis Reveals the Crucial Role of the Endogenous Peptides in Bladder Cancer Progression</p>

Zhang

et al. 2020

OTT

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Background: Peptide drugs provide promising regimes in bladder cancer. In order to identify potential bioactive peptides involved in bladder cancer, we performed the present study. Methods: Liquid chromatography/mass spectrometry assay was used to compare the endogenous peptides between bladder cancer and normal control. The potential biological functions of these dysregulated peptides are assessed by GO analysis and KEGG pathway analysis of their precursors. The SMART and UniProt databases are used to identify the sequences of the dysregulated peptides located in the functional domains. The Open Targets Platform database was used to investigate the precursors related to metabolic diseases. Results: A total of 9 up-regulated peptides and 110 down-regulated peptides in bladder cancer compared with normal control were identified (fold change > 1.2, P < 0.05). The MW of these dysregulated peptides ranged from 500 Da to 2500 Da and the MW of all identified peptides was below 3500 Da. The GO and KEGG pathway analysis indicated that these dysregulated peptides could play an important role in bladder cancer. Our further analysis revealed that 45 HFNPRFNAHGDAN 57 derived from LGALS1 and those peptides derived from P4HB and SERPINA1 might be the promising diagnostic biomarkers and therapeutic targets of bladder cancer. Conclusion: In the present study, we have identified the profile of the peptides significantly dysregulated in bladder cancer. Moreover, using bioinformatic analysis, we found the peptides derived from LGALS1, P4HB and SERPINA1 could be the promising diagnostic biomarkers and therapeutic targets of bladder cancer.

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RNA Sequencing Uncovers Molecular Mechanisms Underlying Pathological Complete Response to Chemotherapy in Patients with Operable Breast Cancer

Cited by 19 publications

References 31 publications

Differentially expressed gene profile and relevant pathways of the traditional Chinese medicine cinobufotalin on MCF‑7 breast cancer cells

Differentially expressed gene profile and relevant pathways of the traditional Chinese medicine cinobufotalin on MCF‑7 breast cancer cells

A Novel Approach for Identifying Relevant Genes for Breast Cancer Survivability on Specific Therapies

<p>Profiling Analysis Reveals the Crucial Role of the Endogenous Peptides in Bladder Cancer Progression</p>

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