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Multi-omics Approach Reveals Influenza-A Virus Target Genes Associated Genomic, Clinical and Immunological
Jiao Jiao Wang1, Yong Liao2, Ping Lian Yang3
1Center of Scientific Research, Department of Cardiology, Maoming People's Hospital, Maoming 525000, Guangdong, China.
Objective:
To examine the precise function of influenza A virus target genes (IATGs) in malignancy.
Methods:
Using multi-omics data from the TCGA and TCPA datasets, 33 tumor types were evaluated for IATGs. IATG expression in cancer cells was analyzed using transcriptome analysis. Copy number variation (CNV) was assessed using GISTICS 2.0. Spearman's analysis was used to correlate mRNA expression with methylation levels. GSEA was used for the enrichment analysis. Pearson's correlation analysis was used to examine the association between IATG mRNA expression and IC50. The ImmuCellAI algorithm was used to calculate the infiltration scores of 24 immune cell types.
Results:
In 13 solid tumors, IATG mRNA levels were atypically expressed. Except for UCS, UVM, KICH, PCPG, THCA, CHOL, LAMI, and MESO, most cancers contained somatic IATG mutations. The main types of CNVs in IATGs are heterozygous amplifications and deletions. In most tumors, IATG mRNA expression is adversely associated with methylation. RT-PCR demonstrated that EGFR, ANXA5, CACNA1C, CD209, UVRAG were upregulated and CLEC4M was downregulated in KIRC cell lines, consistent with the TCGA and GTEx data.
Conclusion:
Genomic changes and clinical characteristics of IATGs were identified, which may offer fresh perspectives linking the influenza A virus to cancer.
Insights
Influenza A virus target genes (IATGs) show atypical expression and genomic alterations across many cancers. These findings provide new insights into the link between influenza A virus infection and cancer development.
Area of Science:
- Oncology
- Virology
- Genomics
Background:
- Influenza A virus target genes (IATGs) are implicated in various biological processes.
- Understanding the role of IATGs in cancer is crucial for developing novel therapeutic strategies.
Purpose of the Study:
- To investigate the precise function and genomic alterations of influenza A virus target genes (IATGs) in malignancy.
- To explore the association between IATG expression, genomic variations, and clinical characteristics in diverse cancer types.
Main Methods:
- Utilized multi-omics data from TCGA and TCPA datasets, encompassing 33 tumor types.
- Performed transcriptome analysis, copy number variation (CNV) assessment, methylation correlation, gene set enrichment analysis (GSEA), and immune cell infiltration analysis.
Main Results:
- Atypical IATG mRNA expression was observed in 13 solid tumors, with somatic mutations found in most cancers.
- Heterozygous amplifications and deletions were the predominant CNVs for IATGs, and expression was inversely correlated with methylation.
- RT-PCR validated differential expression of specific IATGs (e.g., EGFR, ANXA5, CLEC4M) in KIRC cell lines.
Conclusions:
- Identified significant genomic alterations and expression patterns of IATGs across various cancers.
- These findings offer novel perspectives on the potential role of influenza A virus in cancer etiology and progression.
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