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

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 ...

Genetic polymorphisms in 15q25 and 19q13 loci, cotinine levels, and risk of lung cancer in EPIC.

Timofeeva, M
McKay, J
Smith, G
Johansson, M
Byrnes, G
Chabrier, A
Relton, C
Ueland, P
Vollset, SE
Midttun, Ø
Nygård, O
Slimani, N
Romieu, I
Clavel-Chapelon, F
Boutron-Ruault, M
Fagherazzi, G
Kaaks, R
Teucher, B
Boeing, H
Weikert, C
Bueno-de-Mesquita, H
van Gils, C
Peeters, P
Agudo, A
Barricarte, A

January 2011

BACKGROUNDS: Multiple polymorphisms affecting smoking behavior have been identified through genome-w...

Additional file 1: Table S1. of DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies

Xu Gao (51798)
Min Jia (285386)
Yan Zhang (8098)
Lutz Breitling (3504188)
Hermann Brenner (63649)

October 2015

Details of CpG sites published in all active smoking EWASs included in the review. This table includ...

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 11: 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 S8. Results for CIT performed on DILGOM sample replicated CpG sites and SNPs associated with t...

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 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 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...

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 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 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. ...

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...

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...

Genetic polymorphisms in 15q25 and 19q13 loci, cotinine levels, and risk of lung cancer in EPIC

Timofeeva, MN
McKay, JD
Smith, GD
Johansson, M
Byrnes, GB
Chabrier, A
Relton, C
Ueland, PM
Vollset, SE
Midttun, Ø
Nygård, O
Slimani, N
Romieu, I
Clavel-Chapelon, F
Boutron-Ruault, M-C
Fagherazzi, G
Kaaks, R
Teucher, B
Boeing, H
Weikert, C
Bueno-de-Mesquita, HB
Van Gils, C
Peeters, PHM
Agudo, A
Barricarte, A
Huerta, J-M
Rodríguez, L
Sánchez, M-J
Larrañaga, N
Khaw, K-T
Wareham, N
Allen, NE
Travis, RC
Gallo, V
Norat, T
Krogh, V
Masala, G
Panico, S
Sacerdote, C
Tumino, R
Trichopoulou, A
Lagiou, P
Trichopoulos, D
Rasmuson, T
Hallmans, G
Riboli, E
Vineis, P
Brennan, P

October 2011

Backgrounds: Multiple polymorphisms affecting smoking behavior have been identified through genomewi...

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 ...

Genetic polymorphisms in 15q25 and 19q13 loci, cotinine levels, and risk of lung cancer in EPIC.

Timofeeva, M
McKay, J
Smith, G
Johansson, M
Byrnes, G
Chabrier, A
Relton, C
Ueland, P
Vollset, SE
Midttun, Ø
Nygård, O
Slimani, N
Romieu, I
Clavel-Chapelon, F
Boutron-Ruault, M
Fagherazzi, G
Kaaks, R
Teucher, B
Boeing, H
Weikert, C
Bueno-de-Mesquita, H
van Gils, C
Peeters, P
Agudo, A
Barricarte, A

January 2011

BACKGROUNDS: Multiple polymorphisms affecting smoking behavior have been identified through genome-w...

Additional file 1: Table S1. of DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies

Xu Gao (51798)
Min Jia (285386)
Yan Zhang (8098)
Lutz Breitling (3504188)
Hermann Brenner (63649)

October 2015

Details of CpG sites published in all active smoking EWASs included in the review. This table includ...

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 11: 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 S8. Results for CIT performed on DILGOM sample replicated CpG sites and SNPs associated with t...

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 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 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...

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 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 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. ...

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...

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...

Genetic polymorphisms in 15q25 and 19q13 loci, cotinine levels, and risk of lung cancer in EPIC

Timofeeva, MN
McKay, JD
Smith, GD
Johansson, M
Byrnes, GB
Chabrier, A
Relton, C
Ueland, PM
Vollset, SE
Midttun, Ø
Nygård, O
Slimani, N
Romieu, I
Clavel-Chapelon, F
Boutron-Ruault, M-C
Fagherazzi, G
Kaaks, R
Teucher, B
Boeing, H
Weikert, C
Bueno-de-Mesquita, HB
Van Gils, C
Peeters, PHM
Agudo, A
Barricarte, A
Huerta, J-M
Rodríguez, L
Sánchez, M-J
Larrañaga, N
Khaw, K-T
Wareham, N
Allen, NE
Travis, RC
Gallo, V
Norat, T
Krogh, V
Masala, G
Panico, S
Sacerdote, C
Tumino, R
Trichopoulou, A
Lagiou, P
Trichopoulos, D
Rasmuson, T
Hallmans, G
Riboli, E
Vineis, P
Brennan, P

October 2011

Backgrounds: Multiple polymorphisms affecting smoking behavior have been identified through genomewi...

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 ...

Genetic polymorphisms in 15q25 and 19q13 loci, cotinine levels, and risk of lung cancer in EPIC.

Timofeeva, M
McKay, J
Smith, G
Johansson, M
Byrnes, G
Chabrier, A
Relton, C
Ueland, P
Vollset, SE
Midttun, Ø
Nygård, O
Slimani, N
Romieu, I
Clavel-Chapelon, F
Boutron-Ruault, M
Fagherazzi, G
Kaaks, R
Teucher, B
Boeing, H
Weikert, C
Bueno-de-Mesquita, H
van Gils, C
Peeters, P
Agudo, A
Barricarte, A

January 2011

BACKGROUNDS: Multiple polymorphisms affecting smoking behavior have been identified through genome-w...

Additional file 1: Table S1. of DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies

Xu Gao (51798)
Min Jia (285386)
Yan Zhang (8098)
Lutz Breitling (3504188)
Hermann Brenner (63649)

October 2015

Details of CpG sites published in all active smoking EWASs included in the review. This table includ...

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

Abstract

Extracted data

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

Abstract

Extracted data

Related items

Related items