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Background <p>Metabolic reprogramming is a hallmark of cancer development, including in lung adenocarcinoma (LUAD). This study aimed to explore the relationships between metabolic gene methylation, expression, and protein levels with LUAD risk using Mendelian randomization, leveraging multi-omic data to identify potential molecular targets for early detection and treatment.</p> Methods <p>The study utilized summary-level data from methylation, expression, and protein quantitative trait loci (QTL) studies. Genetic associations with LUAD risk were sourced from the TRICL Consortium for discovery analysis and validated using data from the FinnGen cohort. Mendelian randomization was conducted to evaluate associations between metabolic gene-related molecular features and LUAD risk, while colocalization analyses were performed to assess whether the identified signals shared causal genetic variants.</p> Results <p>The analysis highlighted significant associations between LUAD risk and specific molecular features of metabolic genes. Among these, CHRNA3 emerged as a key gene of interest, with methylation at two sites significantly associated with increased LUAD risk, supported by strong colocalization evidence. Validation in the FinnGen cohort confirmed the association of one methylation site, strengthening its role in LUAD development. Additionally, expression analyses identified FLOT1 and HYKK as genes with moderate but meaningful associations with LUAD risk, with robust colocalization evidence linking their expression to disease susceptibility. Protective associations were observed for specific protein levels, notably for POGLUT3, which displayed a significant inverse relationship with LUAD risk. These findings collectively identify a set of tier 1 metabolic genes, including CHRNA3, FLOT1, HYKK, and POGLUT3, as central players in the metabolic dysregulation underlying LUAD.</p> Conclusion <p>This multi-omic Mendelian randomization study provides compelling evidence of the role of metabolic genes in LUAD risk. Methylation changes in CHRNA3, altered expression of FLOT1 and HYKK, and protective protein levels of POGLUT3 represent key molecular features associated with disease susceptibility. These findings offer valuable insights into potential molecular targets for early LUAD detection and therapeutic strategies.</p>

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Multiomic Mendelian randomization analysis of metabolic gene methylation expression and protein levels in lung adenocarcinoma

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年9月29日

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  • Qing Wang,
  • Gang Liu,
  • Jun Zhang,
  • Qinguang Zou,
  • Junfeng Geng

摘要

Background

Metabolic reprogramming is a hallmark of cancer development, including in lung adenocarcinoma (LUAD). This study aimed to explore the relationships between metabolic gene methylation, expression, and protein levels with LUAD risk using Mendelian randomization, leveraging multi-omic data to identify potential molecular targets for early detection and treatment.

Methods

The study utilized summary-level data from methylation, expression, and protein quantitative trait loci (QTL) studies. Genetic associations with LUAD risk were sourced from the TRICL Consortium for discovery analysis and validated using data from the FinnGen cohort. Mendelian randomization was conducted to evaluate associations between metabolic gene-related molecular features and LUAD risk, while colocalization analyses were performed to assess whether the identified signals shared causal genetic variants.

Results

The analysis highlighted significant associations between LUAD risk and specific molecular features of metabolic genes. Among these, CHRNA3 emerged as a key gene of interest, with methylation at two sites significantly associated with increased LUAD risk, supported by strong colocalization evidence. Validation in the FinnGen cohort confirmed the association of one methylation site, strengthening its role in LUAD development. Additionally, expression analyses identified FLOT1 and HYKK as genes with moderate but meaningful associations with LUAD risk, with robust colocalization evidence linking their expression to disease susceptibility. Protective associations were observed for specific protein levels, notably for POGLUT3, which displayed a significant inverse relationship with LUAD risk. These findings collectively identify a set of tier 1 metabolic genes, including CHRNA3, FLOT1, HYKK, and POGLUT3, as central players in the metabolic dysregulation underlying LUAD.

Conclusion

This multi-omic Mendelian randomization study provides compelling evidence of the role of metabolic genes in LUAD risk. Methylation changes in CHRNA3, altered expression of FLOT1 and HYKK, and protective protein levels of POGLUT3 represent key molecular features associated with disease susceptibility. These findings offer valuable insights into potential molecular targets for early LUAD detection and therapeutic strategies.