Dataset Information

Co-expression in tissue-specific gene networks links genes in cancer-susceptibility loci to known somatic driver genes.

ABSTRACT:

Background

The genetic background of cancer remains complex and challenging to integrate. Many somatic mutations within genes are known to cause and drive cancer, while genome-wide association studies (GWAS) of cancer have revealed many germline risk factors associated with cancer. However, the overlap between known somatic driver genes and positional candidate genes from GWAS loci is surprisingly small. We hypothesised that genes from multiple independent cancer GWAS loci should show tissue-specific co-regulation patterns that converge on cancer-specific driver genes.

Results

We studied recent well-powered GWAS of breast, prostate, colorectal and skin cancer by estimating co-expression between genes and subsequently prioritising genes that show significant co-expression with genes mapping within susceptibility loci from cancer GWAS. We observed that the prioritised genes were strongly enriched for cancer drivers defined by COSMIC, IntOGen and Dietlein et al. The enrichment of known cancer driver genes was most significant when using co-expression networks derived from non-cancer samples of the relevant tissue of origin.

Conclusion

We show how genes within risk loci identified by cancer GWAS can be linked to known cancer driver genes through tissue-specific co-expression networks. This provides an important explanation for why seemingly unrelated sets of genes that harbour either germline risk factors or somatic mutations can eventually cause the same type of disease.

SUBMITTER: Urzua-Traslavina CG

PROVIDER: S-EPMC11247850 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature

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Publications

Co-expression in tissue-specific gene networks links genes in cancer-susceptibility loci to known somatic driver genes.

Urzúa-Traslaviña Carlos G CG van Lieshout Tijs T Boulogne Floranne F Domanegg Kevin K Zidan Mahmoud M Bakker Olivier B OB Claringbould Annique A de Ridder Jeroen J Zwart Wilbert W Westra Harm-Jan HJ Deelen Patrick P Franke Lude L

BMC medical genomics 20240715 1

<h4>Background</h4>The genetic background of cancer remains complex and challenging to integrate. Many somatic mutations within genes are known to cause and drive cancer, while genome-wide association studies (GWAS) of cancer have revealed many germline risk factors associated with cancer. However, the overlap between known somatic driver genes and positional candidate genes from GWAS loci is surprisingly small. We hypothesised that genes from multiple independent cancer GWAS loci should show ti ...[more]

PMID: 39010058

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Dataset Information

Co-expression in tissue-specific gene networks links genes in cancer-susceptibility loci to known somatic driver genes.

Background

Results

Conclusion

Publications

Co-expression in tissue-specific gene networks links genes in cancer-susceptibility loci to known somatic driver genes.

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