Association between methylation quantitative trait loci and colorectal cancer risk, survival and cancer recurrence

Sung H, Ferlay J, Siegel RL, Laversanne M, Soerjomataram I, Jemal A, et al. Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2021;71:209–49.

Article  PubMed  Google Scholar 

Jiao S, Peters U, Berndt S, Brenner H, Butterbach K, Caan BJ, et al. Estimating the heritability of colorectal cancer. Hum Mol Genet. 2014;23:3898–905.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Mucci LA, Hjelmborg JB, Harris JR, Czene K, Havelick DJ, Scheike T, et al. Familial risk and heritability of cancer among twins in Nordic Countries. Jama. 2016;315:68–76.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Fernandez-Rozadilla C, Timofeeva M, Chen Z, Law P, Thomas M, Schmit S, et al. Deciphering colorectal cancer genetics through multi-omic analysis of 100,204 cases and 154,587 controls of European and east Asian ancestries. Nat Genet. 2023;55:89–99.

Article  CAS  PubMed  Google Scholar 

Penney KL, Banbury BL, Bien S, Harrison TA, Hua X, Phipps AI, et al. Genetic variant associated with survival of patients with stage II-III Colon Cancer. Clin Gastroenterol Hepatol. 2020;18:2717–23.e3.

Article  CAS  PubMed  Google Scholar 

Labadie JD, Savas S, Harrison TA, Banbury B, Huang Y, Buchanan DD, et al. Genome-wide association study identifies tumor anatomical site-specific risk variants for colorectal cancer survival. Sci Rep. 2022;12:127.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Yu Y, Werdyani S, Carey M, Parfrey P, Yilmaz YE, Savas S. A comprehensive analysis of SNPs and CNVs identifies novel markers associated with disease outcomes in colorectal cancer. Mol Oncol. 2021;15:3329–47.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Pander J, van Huis-Tanja L, Böhringer S, van der Straaten T, Gelderblom H, Punt C, et al. Genome wide association study for predictors of progression free survival in patients on capecitabine, oxaliplatin, bevacizumab and cetuximab in first-line therapy of metastatic colorectal cancer. PloS one. 2015;10:e0131091.

Article  PubMed  PubMed Central  Google Scholar 

He Y, Theodoratou E, Li X, Din FVN, Vaughan-Shaw P, Svinti V, et al. Effects of common genetic variants associated with colorectal cancer risk on survival outcomes after diagnosis: a large population-based cohort study. Int J cancer. 2019;145:2427–32.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Okugawa Y, Grady WM, Goel AJG. Epigenetic alterations in colorectal cancer: emerging biomarkers. Gastroenterology. 2015;149:1204–25.e12.

Zhang Y, Wilson R, Heiss J, Breitling LP, Saum K-U, Schöttker B, et al. DNA methylation signatures in peripheral blood strongly predict all-cause mortality. Nat Commun. 2017;8:14617.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Oliva M, Demanelis K, Lu Y, Chernoff M, Jasmine F, Ahsan H, et al. DNA methylation QTL mapping across diverse human tissues provides molecular links between genetic variation and complex traits. Nat Genet. 2023;55:112–22.

Article  CAS  PubMed  Google Scholar 

Min JL, Hemani G, Hannon E, Dekkers KF, Castillo-Fernandez J, Luijk R, et al. Genomic and phenotypic insights from an atlas of genetic effects on DNA methylation. Nat Genet. 2021;53:1311–21.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Li X, Timofeeva M, Spiliopoulou A, McKeigue P, He Y, Zhang X, et al. Prediction of colorectal cancer risk based on profiling with common genetic variants. Int J Cancer. 2020;147:3431–7.

Article  CAS  PubMed  Google Scholar 

Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81:559–75.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Auton A, Abecasis GR, Altshuler DM, Durbin RM, Abecasis GR, Bentley DR, et al. A global reference for human genetic variation. Nature. 2015;526:68–74.

Article  PubMed  Google Scholar 

Walter K, Min JL, Huang J, Crooks L, Memari Y, McCarthy S, et al. The UK10K project identifies rare variants in health and disease. Nature. 2015;526:82–90.

Article  CAS  PubMed  Google Scholar 

Spiliopoulou A, Colombo M, Plant D, Nair N, Cui J, Coenen MJ, et al. Association of response to TNF inhibitors in rheumatoid arthritis with quantitative trait loci for <em>CD40</em> and CD39. Ann Rheum Dis. 2019;78:1055–61.

Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B. 1995;57:289–300.

Article  Google Scholar 

Lee K, Kim Y, Lee SJ, Qiang Y, Lee D, Lee HW, et al. MDGAs interact selectively with neuroligin-2 but not other neuroligins to regulate inhibitory synapse development. Proc Natl Acad Sci USA. 2013;110:336–41.

Article  CAS  PubMed  Google Scholar 

Wang K, Liang Q, Li X, Tsoi H, Zhang J, Wang H, et al. MDGA2 is a novel tumour suppressor cooperating with DMAP1 in gastric cancer and is associated with disease outcome. Gut. 2016;65:1619–31.

Article  CAS  PubMed  Google Scholar 

Kumar S, Das A. Peripheral blood mononuclear cell derived biomarker detection using eXplainable Artificial Intelligence (XAI) provides better diagnosis of breast cancer. Computational Biol Chem. 2023;104:107867.

Article  CAS  Google Scholar 

Fang Z, Huang H, Wang L, Lin Z. Identification of the alpha linolenic acid metabolism-related signature associated with prognosis and the immune microenvironment in nasopharyngeal carcinoma. Front Endocrinol. 2022;13:968984.

Article  Google Scholar 

Wilhelm LP, Wendling C, Védie B, Kobayashi T, Chenard MP, Tomasetto C, et al. STARD3 mediates endoplasmic reticulum-to-endosome cholesterol transport at membrane contact sites. EMBO J. 2017;36:1412–33.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Maslyanko M, Harris RD, Mu D. Connecting cholesterol efflux factors to lung cancer biology and therapeutics. Int J Mol Sci. 2021;22:7209.

Liu D, Zhou D, Sun Y, Zhu J, Ghoneim D, Wu C, et al. A transcriptome-wide association study identifies candidate susceptibility genes for pancreatic cancer risk. Cancer Res. 2020;80:4346–54.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Qiu Y, Zhang Z-Y, Du W-D, Ye L, Xu S, Zuo X-B, et al. Association analysis of ERBB2 amplicon genetic polymorphisms and STARD3 expression with risk of gastric cancer in the Chinese population. Gene. 2014;535:225–32.

Article  CAS  PubMed  Google Scholar 

De Marco C, Zoppoli P, Rinaldo N, Morganella S, Morello M, Zuccalà V, et al. Genome-wide analysis of copy number alterations led to the characterisation of PDCD10 as oncogene in ovarian cancer. Transl Oncol. 2021;14:101013.

Article  PubMed  PubMed Central  Google Scholar 

Fararjeh AFS, Al Khader A, Kaddumi E, Obeidat M, Al-Fawares O. Differential expression and prognostic significance of STARD3 gene in breast carcinoma. Int J Mol Cell Med. 2021;10:34–41.

PubMed  PubMed Central  Google Scholar 

Lodi M, Voilquin L, Alpy F, Molière S, Reix N, Mathelin C, et al. STARD3: a new biomarker in HER2-positive breast cancer. Cancers. 2023;15:362.

Tuccinardi T, Poli G, Corchia I, Granchi C, Lapillo M, Macchia M, et al. A virtual screening study for lactate dehydrogenase 5 inhibitors by using a pharmacophore-based approach. Mol Inform. 2016;35:434–9.

Article  CAS  PubMed  Google Scholar 

Ahmadiyeh N, Pomerantz MM, Grisanzio C, Herman P, Jia L, Almendro V, et al. 8q24 prostate, breast, and colon cancer risk loci show tissue-specific long-range interaction with MYC. Proc Natl Acad Sci USA. 2010;107:9742-6.

Sivadas A, Kok VC, Ng KL. Multi-omics analyses provide novel biological insights to distinguish lobular ductal types of invasive breast cancers. Breast Cancer Res Treat. 2022;193:361–79.

Article  CAS  PubMed  Google Scholar 

Barry KH, Moore LE, Sampson JN, Koutros S, Yan L, Meyer A, et al. Prospective study of DNA methylation at chromosome 8q24 in peripheral blood and prostate cancer risk. Br J cancer. 2017;116:1470–9.

Article  CAS  PubMed  PubMed Central 

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