Additional file 11: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Identification of a new locus and validation of previously reported loci showing differential methylation associated with smoking. The REGICOR study

Sergi Sayols-Baixeras (827526)
Carla Lluís-Ganella (145669)
Isaac Subirana (145672)
Lucas A Salas (676897)
Nadia Vilahur (827527)
Dolores Corella (108667)
Dani Muñoz (827528)
Antonio Segura (500538)
Jordi Jimenez-Conde (827529)
Sebastián Moran (827530)
Carolina Soriano-Tárraga (400877)
Jaume Roquer (400883)
Antonio Lopez-Farré (827531)
Jaume Marrugat (276053)
Montse Fitó (753026)
Roberto Elosua (145693)

November 2015

<p>Smoking increases the risk of many diseases and could act through changes in DNA methylation patt...

Additional file 4: Table S3. of DNA methylation and smoking in Korean adults: epigenome-wide association study

Mi Lee (3414719)
Yoonki Hong (3521672)
Sun-Young Kim (24695)
Stephanie London (588804)
Woo Kim (3483326)

September 2016

CpGs differentially methylated in blood DNA in relation to current smoking compared to never smoking...

Additional file 1: of Causal effect of smoking on DNA methylation in peripheral blood: a twin and family study

Shuai Li (65944)
Ee Wong (3488474)
Minh Bui (659178)
Tuong Nguyen (4664224)
Ji-Hoon Joo (4844136)
Jennifer Stone (3549974)
Gillian Dite (4844133)
Graham Giles (521929)
Richard Saffery (136974)
Melissa Southey (81752)
John Hopper (218871)

February 2018

Table S1. This file includes Table S1: Associations for the 1882 replicated CpGs. (XLSX 156Â kb

Additional file 8: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S5. Mediation analysis omnibus P values for the 19 meQTLs associated with serum cotinine level...

Additional file 10: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S7. CpG sites showing significant (FDR pâ<â0.05) association with cotinine levels in regul...

Additional file 6: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S4. Trans acting methylation quantitative trait loci in the 40 genes highlighted in the EWAS. ...

Additional file 7: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Figure S3. Mediation analysis to assess whether DNA methylation is a causal mediator to the observed...

Additional file 5: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S3. Cis acting methylation quantitative trait loci in the 40 genes highlighted in the EWAS. (X...

Additional file 9: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S6. Transcription factor binding site information for 55 highlighted CpG sites based on ENCODE...

Additional file 3: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S2. SNPs in the 40 top genes significantly associated (FDR pâ<â0.05) with cotinine levels....

Additional file 2: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S1. Gene network (IPA) and pathway analysis (Gene Ontology) of EWAS results. (XLS 3125 kb

Additional file 1: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Figure S1. Manhattan and QQ plots showing epigenome-wide association results from secondary analysis...

Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Gupta, Richa
Van Dongen, Jenny
Fu, Yu
Abdellaoui, Abdel
Tyndale, Rachel F.
Velagapudi, Vidya
Boomsma, Dorret I.
Korhonen, Tellervo
Kaprio, Jaakko
Loukola, Anu
Ollikainen, Miina

January 2019

BACKGROUND: DNA methylation alteration extensively associates with smoking and is a plausible link b...

Self-reported smoking, serum cotinine, and blood DNA methylation

Zhang, Y.
Florath, Ines
Saum, K.
Brenner, H.

January 2016

BACKGROUND: Epigenome-wide profiling of DNA methylation pattern with respect to tobacco smoking has ...

Genome-Wide Meta-Analysis of Cotinine Levels in Cigarette Smokers Identifies Locus at 4q13.2

Ware, Jennifer
Chen, Xiangning
Vink, Jaqueline
Lyytikäinen, Leo-Pekka
Lehtimäki, Terho
Kähönen, Mika

January 2016

Genome-wide association studies (GWAS) of complex behavioural phenotypes such as cigarette smoking t...

Identification of a new locus and validation of previously reported loci showing differential methylation associated with smoking. The REGICOR study

Sergi Sayols-Baixeras (827526)
Carla Lluís-Ganella (145669)
Isaac Subirana (145672)
Lucas A Salas (676897)
Nadia Vilahur (827527)
Dolores Corella (108667)
Dani Muñoz (827528)
Antonio Segura (500538)
Jordi Jimenez-Conde (827529)
Sebastián Moran (827530)
Carolina Soriano-Tárraga (400877)
Jaume Roquer (400883)
Antonio Lopez-Farré (827531)
Jaume Marrugat (276053)
Montse Fitó (753026)
Roberto Elosua (145693)

November 2015

<p>Smoking increases the risk of many diseases and could act through changes in DNA methylation patt...

Additional file 4: Table S3. of DNA methylation and smoking in Korean adults: epigenome-wide association study

Mi Lee (3414719)
Yoonki Hong (3521672)
Sun-Young Kim (24695)
Stephanie London (588804)
Woo Kim (3483326)

September 2016

CpGs differentially methylated in blood DNA in relation to current smoking compared to never smoking...

Additional file 1: of Causal effect of smoking on DNA methylation in peripheral blood: a twin and family study

Shuai Li (65944)
Ee Wong (3488474)
Minh Bui (659178)
Tuong Nguyen (4664224)
Ji-Hoon Joo (4844136)
Jennifer Stone (3549974)
Gillian Dite (4844133)
Graham Giles (521929)
Richard Saffery (136974)
Melissa Southey (81752)
John Hopper (218871)

February 2018

Table S1. This file includes Table S1: Associations for the 1882 replicated CpGs. (XLSX 156Â kb

Additional file 8: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S5. Mediation analysis omnibus P values for the 19 meQTLs associated with serum cotinine level...

Additional file 10: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S7. CpG sites showing significant (FDR pâ<â0.05) association with cotinine levels in regul...

Additional file 6: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S4. Trans acting methylation quantitative trait loci in the 40 genes highlighted in the EWAS. ...

Additional file 7: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Figure S3. Mediation analysis to assess whether DNA methylation is a causal mediator to the observed...

Additional file 5: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S3. Cis acting methylation quantitative trait loci in the 40 genes highlighted in the EWAS. (X...

Additional file 9: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S6. Transcription factor binding site information for 55 highlighted CpG sites based on ENCODE...

Additional file 3: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S2. SNPs in the 40 top genes significantly associated (FDR pâ<â0.05) with cotinine levels....

Additional file 2: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Table S1. Gene network (IPA) and pathway analysis (Gene Ontology) of EWAS results. (XLS 3125 kb

Additional file 1: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Richa Gupta (365179)
Jenny Dongen (6177455)
Yu Fu (16582)
Abdel Abdellaoui (109742)
Rachel Tyndale (3437195)
Vidya Velagapudi (152739)
Dorret Boomsma (39586)
Tellervo Korhonen (577826)
Jaakko Kaprio (43154)
Anu Loukola (253094)
Miina Ollikainen (799967)

January 2019

Figure S1. Manhattan and QQ plots showing epigenome-wide association results from secondary analysis...

Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Gupta, Richa
Van Dongen, Jenny
Fu, Yu
Abdellaoui, Abdel
Tyndale, Rachel F.
Velagapudi, Vidya
Boomsma, Dorret I.
Korhonen, Tellervo
Kaprio, Jaakko
Loukola, Anu
Ollikainen, Miina

January 2019

BACKGROUND: DNA methylation alteration extensively associates with smoking and is a plausible link b...

Self-reported smoking, serum cotinine, and blood DNA methylation

Zhang, Y.
Florath, Ines
Saum, K.
Brenner, H.

January 2016

BACKGROUND: Epigenome-wide profiling of DNA methylation pattern with respect to tobacco smoking has ...

Genome-Wide Meta-Analysis of Cotinine Levels in Cigarette Smokers Identifies Locus at 4q13.2

Ware, Jennifer
Chen, Xiangning
Vink, Jaqueline
Lyytikäinen, Leo-Pekka
Lehtimäki, Terho
Kähönen, Mika

January 2016

Genome-wide association studies (GWAS) of complex behavioural phenotypes such as cigarette smoking t...

Identification of a new locus and validation of previously reported loci showing differential methylation associated with smoking. The REGICOR study

Sergi Sayols-Baixeras (827526)
Carla Lluís-Ganella (145669)
Isaac Subirana (145672)
Lucas A Salas (676897)
Nadia Vilahur (827527)
Dolores Corella (108667)
Dani Muñoz (827528)
Antonio Segura (500538)
Jordi Jimenez-Conde (827529)
Sebastián Moran (827530)
Carolina Soriano-Tárraga (400877)
Jaume Roquer (400883)
Antonio Lopez-Farré (827531)
Jaume Marrugat (276053)
Montse Fitó (753026)
Roberto Elosua (145693)

November 2015

<p>Smoking increases the risk of many diseases and could act through changes in DNA methylation patt...

Additional file 4: Table S3. of DNA methylation and smoking in Korean adults: epigenome-wide association study

Mi Lee (3414719)
Yoonki Hong (3521672)
Sun-Young Kim (24695)
Stephanie London (588804)
Woo Kim (3483326)

September 2016

CpGs differentially methylated in blood DNA in relation to current smoking compared to never smoking...

Additional file 1: of Causal effect of smoking on DNA methylation in peripheral blood: a twin and family study

Shuai Li (65944)
Ee Wong (3488474)
Minh Bui (659178)
Tuong Nguyen (4664224)
Ji-Hoon Joo (4844136)
Jennifer Stone (3549974)
Gillian Dite (4844133)
Graham Giles (521929)
Richard Saffery (136974)
Melissa Southey (81752)
John Hopper (218871)

February 2018

Table S1. This file includes Table S1: Associations for the 1882 replicated CpGs. (XLSX 156Â kb

Additional file 11: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Abstract

Extracted data

Additional file 11: of Epigenome-wide association study of serum cotinine in current smokers reveals novel genetically driven loci

Abstract

Extracted data

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