Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study

Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. Ausführliche Beschreibung

Gespeichert in:

Autor*in:	F. Perrier [verfasserIn] V. Viallon [verfasserIn] S. Ambatipudi [verfasserIn] A. Ghantous [verfasserIn] C. Cuenin [verfasserIn] H. Hernandez-Vargas [verfasserIn] V. Chajès [verfasserIn] L. Baglietto [verfasserIn] M. Matejcic [verfasserIn] H. Moreno-Macias [verfasserIn] T. Kühn [verfasserIn] H. Boeing [verfasserIn] A. Karakatsani [verfasserIn] A. Kotanidou [verfasserIn] A. Trichopoulou [verfasserIn] S. Sieri [verfasserIn] S. Panico [verfasserIn] F. Fasanelli [verfasserIn] M. Dolle [verfasserIn] C. Onland-Moret [verfasserIn] I. Sluijs [verfasserIn] E. Weiderpass [verfasserIn] J. R. Quirós [verfasserIn] A. Agudo [verfasserIn] J. M. Huerta [verfasserIn] E. Ardanaz [verfasserIn] M. Dorronsoro [verfasserIn] T. Y. N. Tong [verfasserIn] K. Tsilidis [verfasserIn] E. Riboli [verfasserIn] M. J. Gunter [verfasserIn] Z. Herceg [verfasserIn] P. Ferrari [verfasserIn] I. Romieu [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2019

Schlagwörter:	DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort

Übergeordnetes Werk:	In: Clinical Epigenetics ; 11(2019), 1, Seite 13 volume:11 ; year:2019 ; number:1 ; pages:13

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc Journal toc

DOI / URN:	10.1186/s13148-019-0637-x

Katalog-ID:	DOAJ006540430

Internformat


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520			\|a Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer.
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650		4	\|a Dietary folate
650		4	\|a Alcohol intake
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allfields	10.1186/s13148-019-0637-x doi (DE-627)DOAJ006540430 (DE-599)DOAJc6df8c06c9dc44ac9f7e5480ef6a1b3f DE-627 ger DE-627 rakwb eng QH426-470 F. Perrier verfasserin aut Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study 2019 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics V. Viallon verfasserin aut S. Ambatipudi verfasserin aut A. Ghantous verfasserin aut C. Cuenin verfasserin aut H. Hernandez-Vargas verfasserin aut V. Chajès verfasserin aut L. Baglietto verfasserin aut M. Matejcic verfasserin aut H. Moreno-Macias verfasserin aut T. Kühn verfasserin aut H. Boeing verfasserin aut A. Karakatsani verfasserin aut A. Kotanidou verfasserin aut A. Trichopoulou verfasserin aut S. Sieri verfasserin aut S. Panico verfasserin aut F. Fasanelli verfasserin aut M. Dolle verfasserin aut C. Onland-Moret verfasserin aut I. Sluijs verfasserin aut E. Weiderpass verfasserin aut J. R. Quirós verfasserin aut A. Agudo verfasserin aut J. M. Huerta verfasserin aut E. Ardanaz verfasserin aut M. Dorronsoro verfasserin aut T. Y. N. Tong verfasserin aut K. Tsilidis verfasserin aut E. Riboli verfasserin aut M. J. Gunter verfasserin aut Z. Herceg verfasserin aut P. Ferrari verfasserin aut I. Romieu verfasserin aut In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13 https://doi.org/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f kostenfrei http://link.springer.com/article/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/toc/1868-7075 Journal toc kostenfrei https://doaj.org/toc/1868-7083 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 11 2019 1 13
spelling	10.1186/s13148-019-0637-x doi (DE-627)DOAJ006540430 (DE-599)DOAJc6df8c06c9dc44ac9f7e5480ef6a1b3f DE-627 ger DE-627 rakwb eng QH426-470 F. Perrier verfasserin aut Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study 2019 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics V. Viallon verfasserin aut S. Ambatipudi verfasserin aut A. Ghantous verfasserin aut C. Cuenin verfasserin aut H. Hernandez-Vargas verfasserin aut V. Chajès verfasserin aut L. Baglietto verfasserin aut M. Matejcic verfasserin aut H. Moreno-Macias verfasserin aut T. Kühn verfasserin aut H. Boeing verfasserin aut A. Karakatsani verfasserin aut A. Kotanidou verfasserin aut A. Trichopoulou verfasserin aut S. Sieri verfasserin aut S. Panico verfasserin aut F. Fasanelli verfasserin aut M. Dolle verfasserin aut C. Onland-Moret verfasserin aut I. Sluijs verfasserin aut E. Weiderpass verfasserin aut J. R. Quirós verfasserin aut A. Agudo verfasserin aut J. M. Huerta verfasserin aut E. Ardanaz verfasserin aut M. Dorronsoro verfasserin aut T. Y. N. Tong verfasserin aut K. Tsilidis verfasserin aut E. Riboli verfasserin aut M. J. Gunter verfasserin aut Z. Herceg verfasserin aut P. Ferrari verfasserin aut I. Romieu verfasserin aut In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13 https://doi.org/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f kostenfrei http://link.springer.com/article/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/toc/1868-7075 Journal toc kostenfrei https://doaj.org/toc/1868-7083 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 11 2019 1 13
allfields_unstemmed	10.1186/s13148-019-0637-x doi (DE-627)DOAJ006540430 (DE-599)DOAJc6df8c06c9dc44ac9f7e5480ef6a1b3f DE-627 ger DE-627 rakwb eng QH426-470 F. Perrier verfasserin aut Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study 2019 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics V. Viallon verfasserin aut S. Ambatipudi verfasserin aut A. Ghantous verfasserin aut C. Cuenin verfasserin aut H. Hernandez-Vargas verfasserin aut V. Chajès verfasserin aut L. Baglietto verfasserin aut M. Matejcic verfasserin aut H. Moreno-Macias verfasserin aut T. Kühn verfasserin aut H. Boeing verfasserin aut A. Karakatsani verfasserin aut A. Kotanidou verfasserin aut A. Trichopoulou verfasserin aut S. Sieri verfasserin aut S. Panico verfasserin aut F. Fasanelli verfasserin aut M. Dolle verfasserin aut C. Onland-Moret verfasserin aut I. Sluijs verfasserin aut E. Weiderpass verfasserin aut J. R. Quirós verfasserin aut A. Agudo verfasserin aut J. M. Huerta verfasserin aut E. Ardanaz verfasserin aut M. Dorronsoro verfasserin aut T. Y. N. Tong verfasserin aut K. Tsilidis verfasserin aut E. Riboli verfasserin aut M. J. Gunter verfasserin aut Z. Herceg verfasserin aut P. Ferrari verfasserin aut I. Romieu verfasserin aut In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13 https://doi.org/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f kostenfrei http://link.springer.com/article/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/toc/1868-7075 Journal toc kostenfrei https://doaj.org/toc/1868-7083 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 11 2019 1 13
allfieldsGer	10.1186/s13148-019-0637-x doi (DE-627)DOAJ006540430 (DE-599)DOAJc6df8c06c9dc44ac9f7e5480ef6a1b3f DE-627 ger DE-627 rakwb eng QH426-470 F. Perrier verfasserin aut Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study 2019 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics V. Viallon verfasserin aut S. Ambatipudi verfasserin aut A. Ghantous verfasserin aut C. Cuenin verfasserin aut H. Hernandez-Vargas verfasserin aut V. Chajès verfasserin aut L. Baglietto verfasserin aut M. Matejcic verfasserin aut H. Moreno-Macias verfasserin aut T. Kühn verfasserin aut H. Boeing verfasserin aut A. Karakatsani verfasserin aut A. Kotanidou verfasserin aut A. Trichopoulou verfasserin aut S. Sieri verfasserin aut S. Panico verfasserin aut F. Fasanelli verfasserin aut M. Dolle verfasserin aut C. Onland-Moret verfasserin aut I. Sluijs verfasserin aut E. Weiderpass verfasserin aut J. R. Quirós verfasserin aut A. Agudo verfasserin aut J. M. Huerta verfasserin aut E. Ardanaz verfasserin aut M. Dorronsoro verfasserin aut T. Y. N. Tong verfasserin aut K. Tsilidis verfasserin aut E. Riboli verfasserin aut M. J. Gunter verfasserin aut Z. Herceg verfasserin aut P. Ferrari verfasserin aut I. Romieu verfasserin aut In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13 https://doi.org/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f kostenfrei http://link.springer.com/article/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/toc/1868-7075 Journal toc kostenfrei https://doaj.org/toc/1868-7083 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 11 2019 1 13
allfieldsSound	10.1186/s13148-019-0637-x doi (DE-627)DOAJ006540430 (DE-599)DOAJc6df8c06c9dc44ac9f7e5480ef6a1b3f DE-627 ger DE-627 rakwb eng QH426-470 F. Perrier verfasserin aut Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study 2019 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer. DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics V. Viallon verfasserin aut S. Ambatipudi verfasserin aut A. Ghantous verfasserin aut C. Cuenin verfasserin aut H. Hernandez-Vargas verfasserin aut V. Chajès verfasserin aut L. Baglietto verfasserin aut M. Matejcic verfasserin aut H. Moreno-Macias verfasserin aut T. Kühn verfasserin aut H. Boeing verfasserin aut A. Karakatsani verfasserin aut A. Kotanidou verfasserin aut A. Trichopoulou verfasserin aut S. Sieri verfasserin aut S. Panico verfasserin aut F. Fasanelli verfasserin aut M. Dolle verfasserin aut C. Onland-Moret verfasserin aut I. Sluijs verfasserin aut E. Weiderpass verfasserin aut J. R. Quirós verfasserin aut A. Agudo verfasserin aut J. M. Huerta verfasserin aut E. Ardanaz verfasserin aut M. Dorronsoro verfasserin aut T. Y. N. Tong verfasserin aut K. Tsilidis verfasserin aut E. Riboli verfasserin aut M. J. Gunter verfasserin aut Z. Herceg verfasserin aut P. Ferrari verfasserin aut I. Romieu verfasserin aut In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13 https://doi.org/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f kostenfrei http://link.springer.com/article/10.1186/s13148-019-0637-x kostenfrei https://doaj.org/toc/1868-7075 Journal toc kostenfrei https://doaj.org/toc/1868-7083 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 11 2019 1 13
language	English
source	In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13
sourceStr	In Clinical Epigenetics 11(2019), 1, Seite 13 volume:11 year:2019 number:1 pages:13
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort Medicine R Genetics
isfreeaccess_bool	true
container_title	Clinical Epigenetics
authorswithroles_txt_mv	F. Perrier @@aut@@ V. Viallon @@aut@@ S. Ambatipudi @@aut@@ A. Ghantous @@aut@@ C. Cuenin @@aut@@ H. Hernandez-Vargas @@aut@@ V. Chajès @@aut@@ L. Baglietto @@aut@@ M. Matejcic @@aut@@ H. Moreno-Macias @@aut@@ T. Kühn @@aut@@ H. Boeing @@aut@@ A. Karakatsani @@aut@@ A. Kotanidou @@aut@@ A. Trichopoulou @@aut@@ S. Sieri @@aut@@ S. Panico @@aut@@ F. Fasanelli @@aut@@ M. Dolle @@aut@@ C. Onland-Moret @@aut@@ I. Sluijs @@aut@@ E. Weiderpass @@aut@@ J. R. Quirós @@aut@@ A. Agudo @@aut@@ J. M. Huerta @@aut@@ E. Ardanaz @@aut@@ M. Dorronsoro @@aut@@ T. Y. N. Tong @@aut@@ K. Tsilidis @@aut@@ E. Riboli @@aut@@ M. J. Gunter @@aut@@ Z. Herceg @@aut@@ P. Ferrari @@aut@@ I. Romieu @@aut@@
publishDateDaySort_date	2019-01-01T00:00:00Z
id	DOAJ006540430
language_de	englisch
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Perrier</subfield><subfield code="e">verfasserin</subfield><subfield code="4">aut</subfield></datafield><datafield tag="245" ind1="1" ind2="0"><subfield code="a">Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study</subfield></datafield><datafield tag="264" ind1=" " ind2="1"><subfield code="c">2019</subfield></datafield><datafield tag="336" ind1=" " ind2=" "><subfield code="a">Text</subfield><subfield code="b">txt</subfield><subfield code="2">rdacontent</subfield></datafield><datafield tag="337" ind1=" " ind2=" "><subfield code="a">Computermedien</subfield><subfield code="b">c</subfield><subfield code="2">rdamedia</subfield></datafield><datafield tag="338" ind1=" " ind2=" "><subfield code="a">Online-Ressource</subfield><subfield code="b">cr</subfield><subfield code="2">rdacarrier</subfield></datafield><datafield tag="520" ind1=" " ind2=" "><subfield code="a">Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. 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callnumber-first	Q - Science
author	F. Perrier
spellingShingle	F. Perrier misc QH426-470 misc DNA methylation misc Dietary folate misc Alcohol intake misc DMR misc Fused lasso misc EPIC cohort misc Medicine misc R misc Genetics Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
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topic_title	QH426-470 Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study DNA methylation Dietary folate Alcohol intake DMR Fused lasso EPIC cohort
topic	misc QH426-470 misc DNA methylation misc Dietary folate misc Alcohol intake misc DMR misc Fused lasso misc EPIC cohort misc Medicine misc R misc Genetics
topic_unstemmed	misc QH426-470 misc DNA methylation misc Dietary folate misc Alcohol intake misc DMR misc Fused lasso misc EPIC cohort misc Medicine misc R misc Genetics
topic_browse	misc QH426-470 misc DNA methylation misc Dietary folate misc Alcohol intake misc DMR misc Fused lasso misc EPIC cohort misc Medicine misc R misc Genetics
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title	Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
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title_full	Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
author_sort	F. Perrier
journal	Clinical Epigenetics
journalStr	Clinical Epigenetics
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author_browse	F. Perrier V. Viallon S. Ambatipudi A. Ghantous C. Cuenin H. Hernandez-Vargas V. Chajès L. Baglietto M. Matejcic H. Moreno-Macias T. Kühn H. Boeing A. Karakatsani A. Kotanidou A. Trichopoulou S. Sieri S. Panico F. Fasanelli M. Dolle C. Onland-Moret I. Sluijs E. Weiderpass J. R. Quirós A. Agudo J. M. Huerta E. Ardanaz M. Dorronsoro T. Y. N. Tong K. Tsilidis E. Riboli M. J. Gunter Z. Herceg P. Ferrari I. Romieu
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title_sort	association of leukocyte dna methylation changes with dietary folate and alcohol intake in the epic study
callnumber	QH426-470
title_auth	Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
abstract	Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer.
abstractGer	Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer.
abstract_unstemmed	Abstract Background There is increasing evidence that folate, an important component of one-carbon metabolism, modulates the epigenome. Alcohol, which can disrupt folate absorption, is also known to affect the epigenome. We investigated the association of dietary folate and alcohol intake on leukocyte DNA methylation levels in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. Leukocyte genome-wide DNA methylation profiles on approximately 450,000 CpG sites were acquired with Illumina HumanMethylation 450K BeadChip measured among 450 women control participants of a case-control study on breast cancer nested within the EPIC cohort. After data preprocessing using surrogate variable analysis to reduce systematic variation, associations of DNA methylation with dietary folate and alcohol intake, assessed with dietary questionnaires, were investigated using CpG site-specific linear models. Specific regions of the methylome were explored using differentially methylated region (DMR) analysis and fused lasso (FL) regressions. The DMR analysis combined results from the feature-specific analysis for a specific chromosome and using distances between features as weights whereas FL regression combined two penalties to encourage sparsity of single features and the difference between two consecutive features. Results After correction for multiple testing, intake of dietary folate was not associated with methylation level at any DNA methylation site, while weak associations were observed between alcohol intake and methylation level at CpG sites cg03199996 and cg07382687, with q val = 0.029 and q val = 0.048, respectively. Interestingly, the DMR analysis revealed a total of 24 and 90 regions associated with dietary folate and alcohol, respectively. For alcohol intake, 6 of the 15 most significant DMRs were identified through FL. Conclusions Alcohol intake was associated with methylation levels at two CpG sites. Evidence from DMR and FL analyses indicated that dietary folate and alcohol intake may be associated with genomic regions with tumor suppressor activity such as the GSDMD and HOXA5 genes. These results were in line with the hypothesis that epigenetic mechanisms play a role in the association between folate and alcohol, although further studies are warranted to clarify the importance of these mechanisms in cancer.
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container_issue	1
title_short	Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
url	https://doi.org/10.1186/s13148-019-0637-x https://doaj.org/article/c6df8c06c9dc44ac9f7e5480ef6a1b3f http://link.springer.com/article/10.1186/s13148-019-0637-x https://doaj.org/toc/1868-7075 https://doaj.org/toc/1868-7083
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author2	V. Viallon S. Ambatipudi A. Ghantous C. Cuenin H. Hernandez-Vargas V. Chajès L. Baglietto M. Matejcic H. Moreno-Macias T. Kühn H. Boeing A. Karakatsani A. Kotanidou A. Trichopoulou S. Sieri S. Panico F. Fasanelli M. Dolle C. Onland-Moret I. Sluijs E. Weiderpass J. R. Quirós A. Agudo J. M. Huerta E. Ardanaz M. Dorronsoro T. Y. N. Tong K. Tsilidis E. Riboli M. J. Gunter Z. Herceg P. Ferrari I. Romieu
author2Str	V. Viallon S. Ambatipudi A. Ghantous C. Cuenin H. Hernandez-Vargas V. Chajès L. Baglietto M. Matejcic H. Moreno-Macias T. Kühn H. Boeing A. Karakatsani A. Kotanidou A. Trichopoulou S. Sieri S. Panico F. Fasanelli M. Dolle C. Onland-Moret I. Sluijs E. Weiderpass J. R. Quirós A. Agudo J. M. Huerta E. Ardanaz M. Dorronsoro T. Y. N. Tong K. Tsilidis E. Riboli M. J. Gunter Z. Herceg P. Ferrari I. Romieu
callnumber-subject	QH - Natural History and Biology
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isOA_txt	true
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doi_str	10.1186/s13148-019-0637-x
callnumber-a	QH426-470
up_date	2024-07-03T21:32:00.826Z
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