Hub Genes and Key Pathway Identification in Colorectal Cancer Based on Bioinformatic Analysis

Lv, Jian; Li, Lili

doi:10.1155/2019/1545680

Cited by 25 publications

(16 citation statements)

References 31 publications

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“…Multiple studies have indicated that CXC chemokines play vital roles in the development and progression of CRC [ 4 , 9 ]. For instance, CXCL1 has been reported to be associated with CRC progression and metastasis by inducing glycolysis [ 10 ]. Additionally, recent studies have indicated that CXCL8 promotes angiogenesis and cell migration in CRC [ 11 ].…”

Section: Introductionmentioning

confidence: 99%

Comprehensive analysis of the prognosis and immune infiltration for CXC chemokines in colorectal cancer

Yang

Wei

Feng

et al. 2021

Aging

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The C-X-C motif (CXC) chemokines are a family of chemotactic molecules that have been identified as potential prognostic markers and prospective therapeutic targets for many kinds of cancer types. Increasing evidence shows that CXC chemokines are associated with the progression of colorectal cancer (CRC); however, the correlations of CXC chemokines with prognostic and immune infiltrates in CRC remain to be clarified. In this study, we analyzed the mRNA expression level, prognostic data and immune infiltrates of CXC chemokines in CRC patients from the Gene Expression Profiling Interactive Analysis, Oncomine, cBioPortal and databases using GeneMANIA, STRING, DAVID 6.8, and TIMER. Our results showed that CXCL1/2/3/4/5/8/9/10/11/13/14/16 were significantly overexpressed in CRC tissues. Furthermore, expression of CXCL1/2/3/9/10/11 was associated with tumor stage in CRC. A significant association was also identified between the co-expression of CXCL16 with EGFR, KRAS and NRAS. In addition, the survival analysis suggested that high CXCL2/3/8/9/10/11/14 expression is correlated with clinical outcomes of CRC patients. Moreover, a significant association was observed between the CXCL8/9/10/11 expression and immune infiltration in colonic and rectal adenocarcinoma. Overall, CXC chemokines are not only implicated as prognostic biomarkers for CRC patients, but may also influence the immune status of CRC tissues.

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Section: Introductionmentioning

confidence: 99%

Comprehensive analysis of the prognosis and immune infiltration for CXC chemokines in colorectal cancer

Yang

Wei

Feng

et al. 2021

Aging

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“…Cancer stem cells (CSCs) are involved in the occurrence and recurrence of CRC and have been identified [ 50 ]. Estrogen signaling pathway may be involved in the occurrence of CRC, but the specific mechanism is not yet clear [ 51 ]. These two pathways may be involved in the progression from PRC to LRRC.…”

Section: Discussionmentioning

confidence: 99%

Whole-exome sequencing of rectal cancer identifies locally recurrent mutations in the Wnt pathway

Yang

et al. 2021

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Locally recurrent rectal cancer (LRRC) leads to a poor prognosis and appears as a clinically predominant pattern of failure. In this research, whole-exome sequencing (WES) was performed on 21 samples from 8 patients to search for the molecular mechanisms of LRRC. The data was analyzed by bioinformatics. Gene Expression Profiling Interactive Analysis (GEPIA) and Human Protein Atlas (HPA) were performed to validate the candidate genes. Immunohistochemistry was used to detect the protein expression of LEF1 and CyclinD1 in LRRC, primary rectal cancer (PRC), and non-recurrent rectal cancer (NRRC) specimens. The results showed that LRRC, PRC, and NRRC had 668, 794, and 190 specific genes, respectively. FGFR1 and MYC have copy number variants (CNVs) in PRC and LRRC, respectively. LRRC specific genes were mainly enriched in positive regulation of transcription from RNA polymerase II promoter, plasma membrane, and ATP binding. The specific signaling pathways of LRRC were Wnt signaling pathway, gap junction, and glucagon signaling pathway, etc. The transcriptional and translational expression levels of genes including NFATC1, PRICKLE1, SOX17, and WNT6 related to Wnt signaling pathway were higher in rectal cancer (READ) tissues than normal rectal tissues. The PRICKLE1 mutation (c.C875T) and WNT6 mutation (c.G629A) were predicted as “D (deleterious)”. Expression levels of LEF1 and cytokinin D1 proteins: LRRC > PRC > NRRC > normal rectal tissue. Gene variants in the Wnt signaling pathway may be critical for the development of LRRC. The present study may provide a basis for the prediction of LRRC and the development of new therapeutic drugs.

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“…The STRING database (http://string-db.org/) is an online tool for high-throughput functional analysis of genes. In this study, the potential associations between the 12 core genes and PLK1 were assessed through the GO annotation analysis and KEGG pathway enrichment analysis [26] [27]. P-values < 0.05 were considered as statistically significance.…”

Section: Go and Kegg Analysismentioning

confidence: 99%

PLK1 Is Implicated in the Poor Prognosis of Hepatocellular Carcinoma

Xun¹,

Lu²,

Wang³

2020

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We aimed to identify if PLK1 could be used as a new diagnostic and therapeutic biomarker in hepatocellular carcinoma (HCC) patient. Expression of PLK1 in HCC was analyzed by using GEPIA (Gene Expression Profiling Interactive Analysis) and UALCAN databases. GEPIA and CBioPortal tools were applied to determine patients' survival and PLK1 mutations, respectively. PPI (Protein-Protein Interaction) networks were further built by STRING (Search Tool for the Retrieval of Interacting Genes) and Metascape Web portals. The data demonstrated that the expression of PLK1 in HCC was significantly enhanced when compared to normal liver tissues (P < 0.001). A higher PLK1 expression resulted in a remarkably shorter disease-free survival as well as overall survival. Moreover, the expression of PLK1 in HCC was related to HCC patients' grade and race, but not gender. The data also suggested that expression of PLK1 elevated gradually from stage 1 to 3 but decreased in stage 4. Three specific gene mutations K146R, S335Afs*120 and D429H of PLK1 occurred in HCC and these unique mutations were not seen in any other tumor tissues. Finally, PPI networks and GO enrichment analysis suggested that PLK1 might be associated with cell cycle and p53 signaling pathway etc. Taken together, our novel findings suggest that PLK1 is implicated in the poor prognosis of hepatocellular carcinoma.

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Hub Genes and Key Pathway Identification in Colorectal Cancer Based on Bioinformatic Analysis

Cited by 25 publications

References 31 publications

Comprehensive analysis of the prognosis and immune infiltration for CXC chemokines in colorectal cancer

Comprehensive analysis of the prognosis and immune infiltration for CXC chemokines in colorectal cancer

Whole-exome sequencing of rectal cancer identifies locally recurrent mutations in the Wnt pathway

PLK1 Is Implicated in the Poor Prognosis of Hepatocellular Carcinoma

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