Analysis of gene expression profiles of non-small cell lung cancer at different stages reveals significantly altered biological functions and candidate genes

Wang, Jin; Song, Jianxiang; Gao, Zhengya; Huo, Xudong; Zhang, Yajun; Wang, Wencai; Qi, Jianwei; Zheng, Shaojiang

doi:10.3892/or.2017.5380

Cited by 17 publications

(15 citation statements)

References 26 publications

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“…Hence, it is essential to investigate the biological characteristics of CRC further, as well as develop new biomarkers for the stratification of patients with CRC into different prognostic subgroups to improve treatment decision-making for CRC. LBX2 is located on chromosome 2p13.1 and several previous studies have reported that it is dysregulated in non-small cell lung cancer, adenoid cystic carcinoma and T-cell acute lymphoblastic leukemia (11)(12)(13). However, the expression levels of LBX2 and its clinical significance in CRC has not been investigated before, to the best of our knowledge.…”

Section: Discussionmentioning

confidence: 92%

“…The underlying mechanisms of LBX2 upregulation in CRC were further explored. LBX2 is located on chromosome 2p13.1, which has been identified differentially expressed in several malignancies (11)(12)(13). From the perspective of genetic and epigenetic alterations, it was demonstrated that 88 patients with CRC had low-level LBX2 DNA amplification, but this was not significantly correlated with LBX2 expression levels.…”

Section: Discussionmentioning

confidence: 99%

“…Owing to its diversity in functional domains, previous studies have revealed that LBX2 is not only involved in diverse physiological processes, including the regulation of myofibril formation and development of heart (7,10), but also tumorigenesis. For example, the aberrant expression of LBX2 has been observed in several types of cancers, such as non-small cell lung cancer, adenoid cystic carcinoma and T-cell acute lymphoblastic leukemia (11)(12)(13). The methylation and downregulation of LBX2 are also associated with adenoid cystic carcinoma development and progression (12).…”

Section: Introductionmentioning

confidence: 99%

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Overexpression of LBX2 associated with tumor progression and poor prognosis in colorectal cancer

Huang

Yang

et al. 2020

Oncol Lett

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Colorectal cancer (CRC) is one of the most common carcinomas with high morbidity and mortality worldwide. However, the underlying molecular mechanisms of CRC are unclear. The aim of the present study was to establish the role that overexpression of LBX2 serves in CRC and to investigate the associated biological pathways. The difference in the expression levels of LBX2 between CRC tissues and adjacent normal colorectal tissues was assessed using the Oncomine database and Tumor Immune Estimation Resource. The expression levels of LBX2 and its prognostic significance in CRC were analyzed using a t-test and χ 2 test using data from The Cancer Genome Atlas database. The Kaplan-Meier method and Cox regression analysis were used to estimate the prognostic value of LBX2 in CRC. Furthermore, the potential mechanisms of LBX2 dysregulation and its underlying molecular mechanisms in CRC were investigated using Gene Set Enrichment Analysis (GSEA). LBX2 expression levels were significantly upregulated in CRC samples compared with corresponding normal colorectal tissues (P<0.05). LBX2 upregulation was correlated with advanced tumor stage (III or IV), vascular invasion, lymphatic invasion and the male sex (all P<0.05). Kaplan-Meier analyses showed that high expression levels of LBX2 were associated with a less favorable overall survival (OS) and disease-free survival (DFS) in CRC (all P<0.05). Multivariate analyses further confirmed that LBX2 upregulation was an independent indicator of less favorable OS and DFS (all P<0.05). In addition, LBX2 DNA hypomethylation and microRNA (miR)-378a-3p downregulation correlated with LBX2 upregulation in CRC (all P<0.05). The downregulation of miR-378a-3p in CRC was also significantly associated with less favorable OS and DFS, as demonstrated using Kaplan-Meier analyses (all P<0.05). Moreover, GSEA indicated that 'VEGF signaling', 'Cell adhesion molecules CAMs', 'Toll-like receptor signaling' and 'Natural killer cell-mediated cytotoxicity' signaling pathways were enriched in the high LBX2 expressing cohort (all P<0.05). Thus, overexpression of LBX2 may be associated with the development of CRC and may serve as a novel prognostic marker and therapeutic target in CRC. The mechanisms of LBX2 upregulation in CRC are possibly associated with LBX2 DNA hypomethylation and miR-378a-3p downregulation. The potential mechanisms of LBX2 upregulation in CRC might be regulated via the 'Cell adhesion molecules CAMs', 'Toll-like receptor signaling' and 'Natural killer cell-mediated cytotoxicity' signaling pathways.

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Section: Discussionmentioning

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Overexpression of LBX2 associated with tumor progression and poor prognosis in colorectal cancer

Huang

Yang

et al. 2020

Oncol Lett

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“…Another study also suggested that differential genera of microbiome existed in different histologic types and metastasis conditions of bronchial washing uid (BWF) and sputum specimens from lung cancer patients [9]. Furthermore, many researchers have demonstrated that the biological patterns, genomic signatures as well as metastasis mechanisms are differential in various clinicopathology of lung cancer [10,11].…”

Section: Introductionmentioning

confidence: 99%

Characteristics of Microbiome in Lung Adenocarcinoma Tissue from Patients in Southwestern China

Zhu¹,

Zhao

Bao

et al. 2020

Preprint

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Background:Increasing evidences have unveiled the connection between microbiome and lung cancer. This study aims to identify the characteristics of microbial communities in the lung cancer tissues from patients in southwestern China, and to compare the distinct microbial genes at different clinical stages of lung cancer for uncovering potential immunotherapy targets.Methods:Forty samples of primary lung adenocarcinoma tissue were performed by 16S rRNA gene sequencing. The subjects were grouped according to TNM stages (T and N group), clinical stage and smoke status. To identify the taxa composition of each sample, Operational Taxonomic Units (OTUs) were classified on the Effective Tags with 97% identity. The linear discriminant analysis effect size (LEfSe) method was utilized to compare relative abundances of all bacterial taxa between non-metastasis group and metastasis group. The Shannon index of the 97% identity OTUs was calculated to evaluate alpha diversity. Beta diversity measurement was calculated using Principal Co-ordinates Analysis (PCoA).Results:A total of 951 OTUs were identified in the cancer tissues, including 224 overlapping genera. No significant difference has been found in the alpha diversity within all the groups. Beta diversity was significantly different in N group, T group and clinical stage group. By LEfSe analysis, nine differential species were identified in the N group, of which the relative abundance of genus Bifidobacterium was 10.78%±11.59% in the N0 group and 20.15%±13.44% in the N+ group (p<0.05). In the T1 and T2 group, the LEfSe result identified 4 phylum and 10 genera. The differential genera were Moraxella, Dolosigranulum, Corynebacteriaceae and Citrobacter in the T2 group and Bifidobacterium, Alistipes, Akkermansia, Blautia, Lactobacillus as well as Facelibacterium in the T1 group. Differential bacterial composition and abundance were also observed in the clinical stage group.Conclusions:In conclusion, by 16S RNA sequencing, we identified dominant species of lung cancer tissue in different groups of AD patients. Bifidobacterium plays important role both in lymph node metastasis and tumor progression, which could provide specific immunotherapy strategy for lung cancer.

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“…In the last decades, gene expression analysis-based microarray was widely used to study the NSCLC, and hundreds of differentially expressed genes (DEGs) were found by differentially expressed gene analysis (DEGA) (4)(5)(6). Furthermore, several key genes, including the well-known gene epidermal growth factor receptor (EGFR) and tumor protein p53 (TP53) were identified (5).…”

Section: Introductionmentioning

confidence: 99%

Cross-Sectional Study of Gene Expression Analysis Identifies Critical Biological Pathways and Key Genes Implicated in Non-Small Cell Lung Cancer

Wang

et al. 2018

Iran Red Crescent Med J

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Background: Non-small cell lung cancer (NSCLC) is the most common type of lung cancer, which accounts for about 85% of all lung cancer types. However, critical biological pathways and key genes implicated in NSCLC remain ambiguous. Objectives: The present study aimed at identifying the critical biological pathways and key genes implicated in NSCLC, and providing insight in the molecular mechanism underlying NSCLC. Methods: In this case-control bioinformatics study, the researchers used four microarray data of NSCLC from public gene expression omnibus (GEO) database at the national center for biotechnology information (NCBI) website. The microarray data came from studies of American, Spanish, and Taiwanese NSCLC patients, and in total contained 190 NSCLC tissue and 180 normal lung tissue. A standardized microarray preprocessing and gene set enrichment analysis (GSEA) were used to analyze each microarray data and obtained significantly regulated pathways. Venn analysis was used to identify the common significantly regulated biological pathways. Protein and protein interaction (PPI) network analysis was used to identify the key genes within common significantly regulated pathways. The PPI information was retrieved from STRING database, and cytoscape software was used to construct and visualize the PPI network. Results: Through integrating GSEA results of four microarray data, finally, the researchers identified 22 common up-regulated and 85 common down-regulated pathways. Many genes within 107 common significantly regulated pathways were significantly enriched within cell cycle pathway (P value of 2.58e-79) and focal adhesion pathway (P value of 2.44e-81). The PPI network showed that up-regulated CDK1 (P value = 1.33e-18 and logFC = 1.41) and down-regulated PIK3R1 (P value = 5.09e-22 and logFC = -1.13) genes shared the most abundant edges, and were associated with NSCLC. Conclusions: This cross-sectional study showed increased concordance between gene expression profiling data. These identified pathways and genes provide some insight in the molecular mechanisms of NSCLC, and the genes may serve as candidate diagnostic and therapeutic targets of NSCLC.

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Analysis of gene expression profiles of non-small cell lung cancer at different stages reveals significantly altered biological functions and candidate genes

Cited by 17 publications

References 26 publications

Overexpression of LBX2 associated with tumor progression and poor prognosis in colorectal cancer

Overexpression of LBX2 associated with tumor progression and poor prognosis in colorectal cancer

Characteristics of Microbiome in Lung Adenocarcinoma Tissue from Patients in Southwestern China

Cross-Sectional Study of Gene Expression Analysis Identifies Critical Biological Pathways and Key Genes Implicated in Non-Small Cell Lung Cancer

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