| Literature DB >> 32181600 |
Hua-Ju Yang1,2,3, Jin-Min Xue1,2,3, Jie Li1,2,3, Ling-Hong Wan1,2,3, Yu-Xi Zhu1,2,3.
Abstract
BACKGROUND: Cervical cancer as one of the most common malignant tumors lead to bad prognosis among women. Some researches already focus on the carcinogenesis and pathogenesis of cervical cancer, but it is still necessary to identify more key genes and pathways.Entities:
Keywords: bioinformatics analysis; cervical cancer; diagnosis and prognosis; differentially expressed genes
Mesh:
Substances:
Year: 2020 PMID: 32181600 PMCID: PMC7284022 DOI: 10.1002/mgg3.1200
Source DB: PubMed Journal: Mol Genet Genomic Med ISSN: 2324-9269 Impact factor: 2.183
FIGURE 1Venn diagram. Identification of the differentially expressed genes in the GSE63514, GSE6791, and GSE9750 gene expression profile datasets. The three datasets showed an overlap of 57 genes. DEGs, Differentially expressed genes
Name of 57 differentially expressed genes
| Differentially expressed genes | |||||||
|---|---|---|---|---|---|---|---|
| Upregulated genes | Downregulated genes | ||||||
| STAT1 | NUP62CL | TOP2A | HOXC6 | DSG1 | ENDOU | KRT4 | ALOX12 |
| AURKA | ISG15 | DTL | MMP12 | CWH43 | UPK1A | CLIC3 | PPP1R3C |
| NEK2 | CXCL8 | CDKN2A | SPP1 | GREB1 | BBOX1 | KLK11 | ESR1 |
| TYMS | GINS1 | FANCI | CEP55 | CXCL14 | GLTP | THSD4 | PDGFD |
| MCM2 | ECT2 | ENO2 | CDK1 | CRCT1 | EDN3 | EREG | SPINK5 |
| IFI44L | FN1 | HELLS | SYCP2 | KRT13 | HOPX | IVL | SOSTDC1 |
| INHBA | WDHD1 | CRNN | CRISP3 | KPT1 | MAL | ||
| DSC2 | KRT2 | IL1R2 | |||||
GO and KEGG pathway enrichment analysis of DEGs
| Term | Description | Gene count |
|
|---|---|---|---|
| Biological processes | |||
| GO:0000082 | G1/S transition of mitotic cell | 5 | 3.21E‐04 |
| GO:0007067 | Mitotic nuclear division | 5 | 8.24E‐03 |
| GO:0051301 | Cell division | 5 | 2.59E‐02 |
| GO:0007267 | Cell–cell signaling | 4 | 4.83E‐02 |
| GO:0030855 | Epithelial cell differentiation | 4 | 1.48E‐03 |
| Cell component | |||
| GO:0005737 | Cytoplasm | 26 | 7.75E‐03 |
| GO:0070062 | Extracellular exosome | 22 | 4.64E‐05 |
| GO:0005654 | Nucleoplasm | 15 | 3.90E‐02 |
| GO:0005615 | Extracellular space | 14 | 1.74E‐04 |
| GO:0005576 | Extracellular region | 14 | 9.73E‐04 |
| Molecular function | |||
| GO:0005515 | Protein binding | 38 | 3.88E‐03 |
| GO:0005198 | Structural molecule activity | 5 | 6.99E‐03 |
| GO:0008083 | Growth factor activity | 4 | 1.36E‐02 |
| KEGG pathway | |||
| hsa04060 | Cytokine–cytokine receptor interaction | 4 | 4.08E‐02 |
| hsa04620 | Toll‐like receptor signaling pathway | 3 | 4.45E‐02 |
| hsa05146 | Amoebiasis | 3 | 4.45E‐02 |
Abbreviations: DEGs, differentially expressed genes; GO, gene ontology; KEGG, Kyoto Encyclopedia of Genes and Genomes.
FIGURE 2Gene ontology enrichment analysis. BP, Biological Process; CC, Cellular Components; MF, Molecular Function
FIGURE 3PPI network of 57 DEGs was constructed in STRING. DEGs, Differentially expressed genes
FIGURE 4PPI network, most significant module of DEGs and Interaction network of the hub genes. (a) PPI network of DEGs was constructed in Cytoscape, red nodes represents upregulated genes, and blue nodes represents downregulated genes. (b–d) There modules were obtained from PPI network using MCODE plug‐in in Cytoscape. (e) Hub genes and their coexpression genes were analyzed by cBioPortal. Nodes with bold black outline mean hub genes. Nodes with thin black outline the coexpression genes. DEGs, differentially expressed genes; MCODE, molecular complex detection; PPI, protein–protein interaction
Functional roles of 12 key genes with degree ≥10
| Gene symbol | Full name | Function |
|---|---|---|
| ECT2 | Epithelial Cell Transforming 2 | ECT2 encodes guanine nucleotide exchange factor, and drives the proliferation and invasion of breast cancer, lung cancer, and gastric cancer. |
| WDHD1 | WD Repeat And HMG‐Box DNA Binding Protein 1 | WDHD1 is the replication initiation factor and involved in the mechanisms of the cancer promotion of E7 genes by evading mitotic checkpoints and inducing polyploid formation |
| TYMS | Thymidylate Synthetase | TYMS encodes thymidine synthase (TS), an important rate‐limiting enzyme that catalyzes the synthesis of pyrimidines, and also a target of fluorouracil medicines. |
| FANCI | FA Complementation Group I | FANCI and FANCD form heterodimers, and participate in DNA repairing and maintain the stability of chromosomes |
| CXCL8 | C‐X‐C Motif Chemokine Ligand 8 | CXCL8 is a chemotactic factor and induces inflammatory responses, neovascularization, and regulates immune responses |
| MCM2 | Minichromosome Maintenance Complex Component 2 | Participate in the initiation and elongation of DNA replication, form a cocktail of antibodies with TOP2A for cervical lesions |
| HELLS | Helicase, Lymphoid Specific | This gene encodes a lymphoid‐specific helicase. Participates in DNA replication, transcription and repair, and plays a role in cell proliferation |
| DTL | Denticleless E3 Ubiquitin Protein Ligase Homolog | DTL is E3 ubiquitin ligase. When DNA is damaged, DTL ubiquitin degrades relevant enzymes to prevent DNA duplication and maintain the stability of genome |
| CEP55 | Centrosomal Protein 55 | CEP55 is a member of the coiled‐coil protein family. Its main function is anchoring the microtubule polymerization‐related proteins, involving in spindle formation, then regulating cell proliferation. |
| CDK1 | Cyclin‐Dependent Kinase 1 | Mitotic serine/threonine kinase that contributes to the regulation of cell cycle progression |
| AURKA | Aurora kinase A | AURKA promotes tumor cell proliferation and invasion, which is related to the resistance of chemotherapy and radiosensitivity |
| TOP2A | DNA Topoisomerase II Alpha | TOP2A can control and alter the topologic states of DNA and can be used to identify advanced cervical lesions |
FIGURE 5Expression boxplots of key genes using GEPIA website. ECT2, WDHD1, TYMS, FANCI, CXCL8, MCM2, HELLS, DTL, CEP55, CDK1, AURKA, and TOP2A were significantly upregulated in cervical cancer compared with normal tissues (p < .01). GEPIA, Gene Expression Profiling Interactive Analysis; ECT2: NC_000003.12; WDHD1: NC_000014.9; TYMS: NC_000018.10; FANCI: NC_000015.10; CXCL8: NC_00 0004.12; MCM2: NC_000003.12; HELLS: NC_000010.11; DTL:NC_000001.11; CEP55: NC_000010.11; CDK1: NC_000010.11; AURKA:NC_000020.11
FIGURE 6Survival analysis. Expression level of CXCL8, HELLS, MCM2, TYMS, and TOP2A was significantly related to the overall survival of patients with cervical squamous cancer (p < .05)
FIGURE 7Expression profiles in human cancers, analysis comparison, and protein expression of CXCL8. (a) Expression profiles in human cancers of CXCL8 were analyzed by UALCAN. (b) The expression of the CXCL8 was compared during the four datasets. Normal tissues as control group. Values above the average were deemed to be overexpressed hub genes (red). (c) Immunohistochemistry results from human protein atlas database showed CXCL8 protein was upregulated