scholarly journals Integrative analysis of lncRNAs and miRNAs with coding RNAs associated with ceRNA crosstalk network in triple negative breast cancer

2017 ◽  
Vol Volume 10 ◽  
pp. 5883-5897 ◽  
Author(s):  
Naijun Yuan ◽  
Guijuan Zhang ◽  
Fengjie Bie ◽  
Min Ma ◽  
Yi Ma ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Triple Negative Breast Cancer ◽  
Triple Negative ◽  
Integrative Analysis

scholarly journals Overexpression of GABRP Gene in Triple Negative Breast Cancer: Molecular Mechanisms and Interpretation

2021 ◽  
Vol 14 (11) ◽  
Author(s):  
Ghasem Azizi-Tabesh ◽  
Zeeba Kamaliyan ◽  
Farzaneh Darbeheshti ◽  
Ramesh Omranipour ◽  
Vahid Soleimani ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Triple Negative Breast Cancer ◽  
Molecular Mechanisms ◽  
Triple Negative ◽  
Critical Role ◽  
Integrative Analysis ◽  
Molecular Signature ◽  
Clinical Prognosis ◽  
Qrt Pcr ◽  
Potential Biomarker

Background: Triple-negative breast cancer (TNBC) is a heterogeneous disease that characterized by aggressiveness features with increased metastasis and poor clinical prognosis. However, the molecular mechanisms underlying this highly malignant phenotype are still poorly understood. It has been well documented that the dysregulation of neural genes is profoundly implicated in cancer development and metastasis. Objectives: In the present study, the expression level of GABA receptor π subunit (GABRP) as the most up-regulated gene in TNBC and a hub node in the co-expression network were investigated. Methods: In this study, the importance of GABRP as the most up-regulated gene in TNBC was discovered through integrative analysis of multiple microarray expression datasets, containing about 1000 samples. Furthermore, the co-expression network analysis was constructed based on the up-regulated genes. Quantitative Real‐time polymerase chain reaction (qRT-PCR) was used to evaluate of the GABRP expression in 50 TNBC compared to 33 non-TNBC tumors. Results: According to the bioinformatics analysis, GABRP occupies a key position in the co-expression network which is mainly enriched in the nervous systems development. The qRT-PCR results indicated that up-regulation of GABRP was highly concordant with integrative analysis findings. Moreover, the receiver operating characteristic (ROC) curve analysis revealed that GABRP can be a potential biomarker to distinguish TNBC from non-TNBC samples. Conclusions: Our study revealed that up-regulation of GABRP is among the most remarkable molecular signature in TNBC and may play a critical role in tumorigenesis. The results may provide a deeper insight into molecular mechanisms underlying the brain metastasis in TNBC tumors and propose the potential targets for therapeutic interventions.

scholarly journals Integrative analysis of the inter-tumoral heterogeneity of triple-negative breast cancer

2018 ◽  
Vol 8 (1) ◽  
Author(s):  
Alec M. Chiu ◽  
Mithun Mitra ◽  
Lari Boymoushakian ◽  
Hilary A. Coller
Keyword(s):  
Breast Cancer ◽  
Triple Negative Breast Cancer ◽  
Triple Negative ◽  
Integrative Analysis

scholarly journals Integrative analysis of AGR2 based on data mining reveals new insights in breast cancer

2020 ◽  
Author(s):  
Xin Zhou ◽  
Fangyuan Zhang ◽  
Yan Liu ◽  
Dongxin Wei
Keyword(s):  
Breast Cancer ◽  
Dna Methylation ◽  
Copy Number Variation ◽  
Triple Negative Breast Cancer ◽  
Copy Number ◽  
Ribosome Biogenesis ◽  
Triple Negative ◽  
Integrative Analysis ◽  
Number Variation ◽  
Malignant Breast

Abstract Background: Belonging to the protein disulfide isomerase (PDI) family, anterior gradient 2 (AGR2) is overexpressed in mucus-secreting cells and endocrine organs such as breast, lung, and ovarian, but its exact function and regulation remain unclear. We aimed to perform integrative analysis of AGR2 in breast cancer.Methods: In our study, a serious of bioinformatic online databases were used to analyze the expression, regulation, prognostic value, and function of AGR2 in breast cancer.Results: The results suggested that AGR2 mRNA was overexpressed in non-basal-like or non-triple-negative breast cancer, but underexpressed in basal-like/ triple-negative breast cancer. AGR2 mRNA expression was correlated with its protein expression. Moreover, the expression of AGR2 was lower in more malignant breast cancer. Furthermore, we also found that DNA methylation, rather than copy number variation, led to AGR2 mRNA overexpression. Prognosis analysis showed no significant correlation between AGR2 level and survival, but in subtype investigation, patients with higher AGR2 level had a significantly better outcome in patients with basal-like / triple-negative breast cancer. Enrichment analysis for co-expression genes of AGR2 revealed that gene sets enriched for chromosome segregation, DNA conformation change, chromosomal region, and GABA receptor activity may play important roles in breast cancer, and that the most significant pathway was “ribosome biogenesis in eukaryotes”, in which negative co-expression genes of AGR2 were enriched.Conclusions: Overexpression of AGR2 was found in less malignant breast cancer, for the first time, our results propose that DNA methylation rather than copy number variation leads to AGR2 overexpression, which can predict favorable prognosis in basal-like/ triple-negative breast cancer, and AGR2 could be a possible regulator of ribosome biogenesis in patients with breast cancer.

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