Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21

Mingfeng Zhang; Zhaoming Wang; Ofure Obazee; Jinping Jia; Erica J. Childs; Jason Hoskins; Gisella Figlioli; Evelina Mocci; Irene Collins; Charles C. Chung; Christopher Hautman; Alan A. Arslan; Laura Beane-Freeman; Paige M. Bracci; Julie Buring; Eric J. Duell; Steven Gallinger; Graham G. Giles; Gary E. Goodman; Phyllis J. Goodman; Aruna Kamineni; Laurence N. Kolonel; Matthew H. Kulke; Núria Malats; Sara H. Olson; Howard D. Sesso; Kala Visvanathan; Emily White; Wei Zheng; Christian C. Abnet; Demetrius Albanes; Gabriella Andreotti; Lauren Brais; H. Bas Bueno-de-Mesquita; Daniela Basso; Sonja I. Berndt; Marie Christine Boutron-Ruault; Maarten F. Bijlsma; Hermann Brenner; Laurie Burdette; Daniele Campa; Neil E. Caporaso; Gabriele Capurso; Giulia Martina Cavestro; Michelle Cotterchio; Eithne Costello; Joanne Elena; Ugo Boggi; J. Michael Gaziano; Maria Gazouli; Edward L. Giovannucci; Michael Goggins; Myron Gross; Christopher A. Haiman; Manal Hassan; Kathy J. Helzlsouer; Nan Hu; David J. Hunter; Elzbieta Iskierka-Jazdzewska; Mazda Jenab; Rudolf Kaaks; Timothy J. Key; Kay Tee Khaw; Eric A. Klein; Manolis Kogevinas; Vittorio Krogh; Juozas Kupcinskas; Robert C. Kurtz; Maria T. Landi; Stefano Landi; Loic Le Marchand; Andrea Mambrini; Satu Mannisto; Roger L. Milne; Rachel E. Neale; Ann L. Oberg; Salvatore Panico; Alpa V. Patel; Petra H.M. Peeters; Ulrike Peters; Raffaele Pezzilli; Miquel Porta; Mark Purdue; J. Ramón Quiros; Elio Riboli; Nathaniel Rothman; Aldo Scarpa; Ghislaine Scelo; Xiao Ou Shu; Debra T. Silverman; Pavel Soucek; Oliver Strobel; Malin Sund; Ewa Malecka-Panas; Philip R. Taylor; Francesca Tavano; Ruth C. Travis; Mark Thornquist; Anne Tjønneland; Geoffrey S. Tobias

doi:10.18632/oncotarget.11041

Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21

Mingfeng Zhang, Zhaoming Wang, Ofure Obazee, Jinping Jia, Erica J. Childs, Jason Hoskins, Gisella Figlioli, Evelina Mocci, Irene Collins, Charles C. Chung, Christopher Hautman, Alan A. Arslan, Laura Beane-Freeman, Paige M. Bracci, Julie Buring, Eric J. Duell, Steven Gallinger, Graham G. Giles, Gary E. Goodman, Phyllis J. GoodmanAruna Kamineni, Laurence N. Kolonel, Matthew H. Kulke, Núria Malats, Sara H. Olson, Howard D. Sesso, Kala Visvanathan, Emily White, Wei Zheng, Christian C. Abnet, Demetrius Albanes, Gabriella Andreotti, Lauren Brais, H. Bas Bueno-de-Mesquita, Daniela Basso, Sonja I. Berndt, Marie Christine Boutron-Ruault, Maarten F. Bijlsma, Hermann Brenner, Laurie Burdette, Daniele Campa, Neil E. Caporaso, Gabriele Capurso, Giulia Martina Cavestro, Michelle Cotterchio, Eithne Costello, Joanne Elena, Ugo Boggi, J. Michael Gaziano, Maria Gazouli, Edward L. Giovannucci, Michael Goggins, Myron Gross, Christopher A. Haiman, Manal Hassan, Kathy J. Helzlsouer, Nan Hu, David J. Hunter, Elzbieta Iskierka-Jazdzewska, Mazda Jenab, Rudolf Kaaks, Timothy J. Key, Kay Tee Khaw, Eric A. Klein, Manolis Kogevinas, Vittorio Krogh, Juozas Kupcinskas, Robert C. Kurtz, Maria T. Landi, Stefano Landi, Loic Le Marchand, Andrea Mambrini, Satu Mannisto, Roger L. Milne, Rachel E. Neale, Ann L. Oberg, Salvatore Panico, Alpa V. Patel, Petra H.M. Peeters, Ulrike Peters, Raffaele Pezzilli, Miquel Porta, Mark Purdue, J. Ramón Quiros, Elio Riboli, Nathaniel Rothman, Aldo Scarpa, Ghislaine Scelo, Xiao Ou Shu, Debra T. Silverman, Pavel Soucek, Oliver Strobel, Malin Sund, Ewa Malecka-Panas, Philip R. Taylor, Francesca Tavano, Ruth C. Travis, Mark Thornquist, Anne Tjønneland, Geoffrey S. Tobias

Department of Paediatrics, Obstetrics and Gynaecology, and Preventive Medicine and Public Health

Research output: Contribution to journal › Article › Research › peer-review

95 Citations (Scopus)

Abstract

Genome-wide association studies (GWAS) have identified common pancreatic cancer susceptibility variants at 13 chromosomal loci in individuals of European descent. To identify new susceptibility variants, we performed imputation based on 1000 Genomes (1000G) Project data and association analysis using 5,107 case and 8,845 control subjects from 27 cohort and case-control studies that participated in the PanScan I-III GWAS. This analysis, in combination with a two-staged replication in an additional 6,076 case and 7,555 control subjects from the PANcreatic Disease ReseArch (PANDoRA) and Pancreatic Cancer Case-Control (PanC4) Consortia uncovered 3 new pancreatic cancer risk signals marked by single nucleotide polymorphisms (SNPs) rs2816938 at chromosome 1q32.1 (per allele odds ratio (OR) = 1.20, P = 4.88x10-15), rs10094872 at 8q24.21 (OR = 1.15, P = 3.22x10-9) and rs35226131 at 5p15.33 (OR = 0.71, P = 1.70x10-8). These SNPs represent independent risk variants at previously identified pancreatic cancer risk loci on chr1q32.1 (NR5A2), chr8q24.21 (MYC) and chr5p15.33 (CLPTM1L-TERT) as per analyses conditioned on previously reported susceptibility variants. We assessed expression of candidate genes at the three risk loci in histologically normal (n = 10) and tumor (n = 8) derived pancreatic tissue samples and observed a marked reduction of NR5A2 expression (chr1q32.1) in the tumors (fold change -7.6, P = 5.7x10-8). This finding was validated in a second set of paired (n = 20) histologically normal and tumor derived pancreatic tissue samples (average fold change for three NR5A2 isoforms -31.3 to -95.7, P = 7.5x10-4-2.0x10-3). Our study has identified new susceptibility variants independently conferring pancreatic cancer risk that merit functional follow-up to identify target genes and explain the underlying biology.

Original language	English
Pages (from-to)	66328-66343
Journal	Oncotarget
Volume	7
Issue number	41
DOIs	https://doi.org/10.18632/oncotarget.11041
Publication status	Published - 1 Jan 2016

Keywords

Fine-mapping
GWAS
Imputation
NR5A2
Pancreatic cancer

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.18632/oncotarget.11041

https://ddd.uab.cat/record/185966

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Zhang, M., Wang, Z., Obazee, O., Jia, J., Childs, E. J., Hoskins, J., Figlioli, G., Mocci, E., Collins, I., Chung, C. C., Hautman, C., Arslan, A. A., Beane-Freeman, L., Bracci, P. M., Buring, J., Duell, E. J., Gallinger, S., Giles, G. G., Goodman, G. E., ... Tobias, G. S. (2016). Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21. Oncotarget, 7(41), 66328-66343. https://doi.org/10.18632/oncotarget.11041

@article{2c591876f35845088a9670d3ca80db24,

title = "Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21",

abstract = "Genome-wide association studies (GWAS) have identified common pancreatic cancer susceptibility variants at 13 chromosomal loci in individuals of European descent. To identify new susceptibility variants, we performed imputation based on 1000 Genomes (1000G) Project data and association analysis using 5,107 case and 8,845 control subjects from 27 cohort and case-control studies that participated in the PanScan I-III GWAS. This analysis, in combination with a two-staged replication in an additional 6,076 case and 7,555 control subjects from the PANcreatic Disease ReseArch (PANDoRA) and Pancreatic Cancer Case-Control (PanC4) Consortia uncovered 3 new pancreatic cancer risk signals marked by single nucleotide polymorphisms (SNPs) rs2816938 at chromosome 1q32.1 (per allele odds ratio (OR) = 1.20, P = 4.88x10-15), rs10094872 at 8q24.21 (OR = 1.15, P = 3.22x10-9) and rs35226131 at 5p15.33 (OR = 0.71, P = 1.70x10-8). These SNPs represent independent risk variants at previously identified pancreatic cancer risk loci on chr1q32.1 (NR5A2), chr8q24.21 (MYC) and chr5p15.33 (CLPTM1L-TERT) as per analyses conditioned on previously reported susceptibility variants. We assessed expression of candidate genes at the three risk loci in histologically normal (n = 10) and tumor (n = 8) derived pancreatic tissue samples and observed a marked reduction of NR5A2 expression (chr1q32.1) in the tumors (fold change -7.6, P = 5.7x10-8). This finding was validated in a second set of paired (n = 20) histologically normal and tumor derived pancreatic tissue samples (average fold change for three NR5A2 isoforms -31.3 to -95.7, P = 7.5x10-4-2.0x10-3). Our study has identified new susceptibility variants independently conferring pancreatic cancer risk that merit functional follow-up to identify target genes and explain the underlying biology.",

keywords = "Fine-mapping, GWAS, Imputation, NR5A2, Pancreatic cancer",

author = "Mingfeng Zhang and Zhaoming Wang and Ofure Obazee and Jinping Jia and Childs, {Erica J.} and Jason Hoskins and Gisella Figlioli and Evelina Mocci and Irene Collins and Chung, {Charles C.} and Christopher Hautman and Arslan, {Alan A.} and Laura Beane-Freeman and Bracci, {Paige M.} and Julie Buring and Duell, {Eric J.} and Steven Gallinger and Giles, {Graham G.} and Goodman, {Gary E.} and Goodman, {Phyllis J.} and Aruna Kamineni and Kolonel, {Laurence N.} and Kulke, {Matthew H.} and N{\'u}ria Malats and Olson, {Sara H.} and Sesso, {Howard D.} and Kala Visvanathan and Emily White and Wei Zheng and Abnet, {Christian C.} and Demetrius Albanes and Gabriella Andreotti and Lauren Brais and {Bas Bueno-de-Mesquita}, H. and Daniela Basso and Berndt, {Sonja I.} and Boutron-Ruault, {Marie Christine} and Bijlsma, {Maarten F.} and Hermann Brenner and Laurie Burdette and Daniele Campa and Caporaso, {Neil E.} and Gabriele Capurso and Cavestro, {Giulia Martina} and Michelle Cotterchio and Eithne Costello and Joanne Elena and Ugo Boggi and {Michael Gaziano}, J. and Maria Gazouli and Giovannucci, {Edward L.} and Michael Goggins and Myron Gross and Haiman, {Christopher A.} and Manal Hassan and Helzlsouer, {Kathy J.} and Nan Hu and Hunter, {David J.} and Elzbieta Iskierka-Jazdzewska and Mazda Jenab and Rudolf Kaaks and Key, {Timothy J.} and Khaw, {Kay Tee} and Klein, {Eric A.} and Manolis Kogevinas and Vittorio Krogh and Juozas Kupcinskas and Kurtz, {Robert C.} and Landi, {Maria T.} and Stefano Landi and Marchand, {Loic Le} and Andrea Mambrini and Satu Mannisto and Milne, {Roger L.} and Neale, {Rachel E.} and Oberg, {Ann L.} and Salvatore Panico and Patel, {Alpa V.} and Peeters, {Petra H.M.} and Ulrike Peters and Raffaele Pezzilli and Miquel Porta and Mark Purdue and {Ram{\'o}n Quiros}, J. and Elio Riboli and Nathaniel Rothman and Aldo Scarpa and Ghislaine Scelo and Shu, {Xiao Ou} and Silverman, {Debra T.} and Pavel Soucek and Oliver Strobel and Malin Sund and Ewa Malecka-Panas and Taylor, {Philip R.} and Francesca Tavano and Travis, {Ruth C.} and Mark Thornquist and Anne Tj{\o}nneland and Tobias, {Geoffrey S.}",

year = "2016",

month = jan,

day = "1",

doi = "10.18632/oncotarget.11041",

language = "English",

volume = "7",

pages = "66328--66343",

journal = "Oncotarget",

issn = "1949-2553",

publisher = "Impact Journals",

number = "41",

}

Zhang, M, Wang, Z, Obazee, O, Jia, J, Childs, EJ, Hoskins, J, Figlioli, G, Mocci, E, Collins, I, Chung, CC, Hautman, C, Arslan, AA, Beane-Freeman, L, Bracci, PM, Buring, J, Duell, EJ, Gallinger, S, Giles, GG, Goodman, GE, Goodman, PJ, Kamineni, A, Kolonel, LN, Kulke, MH, Malats, N, Olson, SH, Sesso, HD, Visvanathan, K, White, E, Zheng, W, Abnet, CC, Albanes, D, Andreotti, G, Brais, L, Bas Bueno-de-Mesquita, H, Basso, D, Berndt, SI, Boutron-Ruault, MC, Bijlsma, MF, Brenner, H, Burdette, L, Campa, D, Caporaso, NE, Capurso, G, Cavestro, GM, Cotterchio, M, Costello, E, Elena, J, Boggi, U, Michael Gaziano, J, Gazouli, M, Giovannucci, EL, Goggins, M, Gross, M, Haiman, CA, Hassan, M, Helzlsouer, KJ, Hu, N, Hunter, DJ, Iskierka-Jazdzewska, E, Jenab, M, Kaaks, R, Key, TJ, Khaw, KT, Klein, EA, Kogevinas, M, Krogh, V, Kupcinskas, J, Kurtz, RC, Landi, MT, Landi, S, Marchand, LL, Mambrini, A, Mannisto, S, Milne, RL, Neale, RE, Oberg, AL, Panico, S, Patel, AV, Peeters, PHM, Peters, U, Pezzilli, R, Porta, M, Purdue, M, Ramón Quiros, J, Riboli, E, Rothman, N, Scarpa, A, Scelo, G, Shu, XO, Silverman, DT, Soucek, P, Strobel, O, Sund, M, Malecka-Panas, E, Taylor, PR, Tavano, F, Travis, RC, Thornquist, M, Tjønneland, A & Tobias, GS 2016, 'Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21', Oncotarget, vol. 7, no. 41, pp. 66328-66343. https://doi.org/10.18632/oncotarget.11041

TY - JOUR

T1 - Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21

AU - Zhang, Mingfeng

AU - Wang, Zhaoming

AU - Obazee, Ofure

AU - Jia, Jinping

AU - Childs, Erica J.

AU - Hoskins, Jason

AU - Figlioli, Gisella

AU - Mocci, Evelina

AU - Collins, Irene

AU - Chung, Charles C.

AU - Hautman, Christopher

AU - Arslan, Alan A.

AU - Beane-Freeman, Laura

AU - Bracci, Paige M.

AU - Buring, Julie

AU - Duell, Eric J.

AU - Gallinger, Steven

AU - Giles, Graham G.

AU - Goodman, Gary E.

AU - Goodman, Phyllis J.

AU - Kamineni, Aruna

AU - Kolonel, Laurence N.

AU - Kulke, Matthew H.

AU - Malats, Núria

AU - Olson, Sara H.

AU - Sesso, Howard D.

AU - Visvanathan, Kala

AU - White, Emily

AU - Zheng, Wei

AU - Abnet, Christian C.

AU - Albanes, Demetrius

AU - Andreotti, Gabriella

AU - Brais, Lauren

AU - Bas Bueno-de-Mesquita, H.

AU - Basso, Daniela

AU - Berndt, Sonja I.

AU - Boutron-Ruault, Marie Christine

AU - Bijlsma, Maarten F.

AU - Brenner, Hermann

AU - Burdette, Laurie

AU - Campa, Daniele

AU - Caporaso, Neil E.

AU - Capurso, Gabriele

AU - Cavestro, Giulia Martina

AU - Cotterchio, Michelle

AU - Costello, Eithne

AU - Elena, Joanne

AU - Boggi, Ugo

AU - Michael Gaziano, J.

AU - Gazouli, Maria

AU - Giovannucci, Edward L.

AU - Goggins, Michael

AU - Gross, Myron

AU - Haiman, Christopher A.

AU - Hassan, Manal

AU - Helzlsouer, Kathy J.

AU - Hu, Nan

AU - Hunter, David J.

AU - Iskierka-Jazdzewska, Elzbieta

AU - Jenab, Mazda

AU - Kaaks, Rudolf

AU - Key, Timothy J.

AU - Khaw, Kay Tee

AU - Klein, Eric A.

AU - Kogevinas, Manolis

AU - Krogh, Vittorio

AU - Kupcinskas, Juozas

AU - Kurtz, Robert C.

AU - Landi, Maria T.

AU - Landi, Stefano

AU - Marchand, Loic Le

AU - Mambrini, Andrea

AU - Mannisto, Satu

AU - Milne, Roger L.

AU - Neale, Rachel E.

AU - Oberg, Ann L.

AU - Panico, Salvatore

AU - Patel, Alpa V.

AU - Peeters, Petra H.M.

AU - Peters, Ulrike

AU - Pezzilli, Raffaele

AU - Porta, Miquel

AU - Purdue, Mark

AU - Ramón Quiros, J.

AU - Riboli, Elio

AU - Rothman, Nathaniel

AU - Scarpa, Aldo

AU - Scelo, Ghislaine

AU - Shu, Xiao Ou

AU - Silverman, Debra T.

AU - Soucek, Pavel

AU - Strobel, Oliver

AU - Sund, Malin

AU - Malecka-Panas, Ewa

AU - Taylor, Philip R.

AU - Tavano, Francesca

AU - Travis, Ruth C.

AU - Thornquist, Mark

AU - Tjønneland, Anne

AU - Tobias, Geoffrey S.

PY - 2016/1/1

Y1 - 2016/1/1

N2 - Genome-wide association studies (GWAS) have identified common pancreatic cancer susceptibility variants at 13 chromosomal loci in individuals of European descent. To identify new susceptibility variants, we performed imputation based on 1000 Genomes (1000G) Project data and association analysis using 5,107 case and 8,845 control subjects from 27 cohort and case-control studies that participated in the PanScan I-III GWAS. This analysis, in combination with a two-staged replication in an additional 6,076 case and 7,555 control subjects from the PANcreatic Disease ReseArch (PANDoRA) and Pancreatic Cancer Case-Control (PanC4) Consortia uncovered 3 new pancreatic cancer risk signals marked by single nucleotide polymorphisms (SNPs) rs2816938 at chromosome 1q32.1 (per allele odds ratio (OR) = 1.20, P = 4.88x10-15), rs10094872 at 8q24.21 (OR = 1.15, P = 3.22x10-9) and rs35226131 at 5p15.33 (OR = 0.71, P = 1.70x10-8). These SNPs represent independent risk variants at previously identified pancreatic cancer risk loci on chr1q32.1 (NR5A2), chr8q24.21 (MYC) and chr5p15.33 (CLPTM1L-TERT) as per analyses conditioned on previously reported susceptibility variants. We assessed expression of candidate genes at the three risk loci in histologically normal (n = 10) and tumor (n = 8) derived pancreatic tissue samples and observed a marked reduction of NR5A2 expression (chr1q32.1) in the tumors (fold change -7.6, P = 5.7x10-8). This finding was validated in a second set of paired (n = 20) histologically normal and tumor derived pancreatic tissue samples (average fold change for three NR5A2 isoforms -31.3 to -95.7, P = 7.5x10-4-2.0x10-3). Our study has identified new susceptibility variants independently conferring pancreatic cancer risk that merit functional follow-up to identify target genes and explain the underlying biology.

AB - Genome-wide association studies (GWAS) have identified common pancreatic cancer susceptibility variants at 13 chromosomal loci in individuals of European descent. To identify new susceptibility variants, we performed imputation based on 1000 Genomes (1000G) Project data and association analysis using 5,107 case and 8,845 control subjects from 27 cohort and case-control studies that participated in the PanScan I-III GWAS. This analysis, in combination with a two-staged replication in an additional 6,076 case and 7,555 control subjects from the PANcreatic Disease ReseArch (PANDoRA) and Pancreatic Cancer Case-Control (PanC4) Consortia uncovered 3 new pancreatic cancer risk signals marked by single nucleotide polymorphisms (SNPs) rs2816938 at chromosome 1q32.1 (per allele odds ratio (OR) = 1.20, P = 4.88x10-15), rs10094872 at 8q24.21 (OR = 1.15, P = 3.22x10-9) and rs35226131 at 5p15.33 (OR = 0.71, P = 1.70x10-8). These SNPs represent independent risk variants at previously identified pancreatic cancer risk loci on chr1q32.1 (NR5A2), chr8q24.21 (MYC) and chr5p15.33 (CLPTM1L-TERT) as per analyses conditioned on previously reported susceptibility variants. We assessed expression of candidate genes at the three risk loci in histologically normal (n = 10) and tumor (n = 8) derived pancreatic tissue samples and observed a marked reduction of NR5A2 expression (chr1q32.1) in the tumors (fold change -7.6, P = 5.7x10-8). This finding was validated in a second set of paired (n = 20) histologically normal and tumor derived pancreatic tissue samples (average fold change for three NR5A2 isoforms -31.3 to -95.7, P = 7.5x10-4-2.0x10-3). Our study has identified new susceptibility variants independently conferring pancreatic cancer risk that merit functional follow-up to identify target genes and explain the underlying biology.

KW - Fine-mapping

KW - GWAS

KW - Imputation

KW - NR5A2

KW - Pancreatic cancer

U2 - 10.18632/oncotarget.11041

DO - 10.18632/oncotarget.11041

M3 - Article

SN - 1949-2553

VL - 7

SP - 66328

EP - 66343

JO - Oncotarget

JF - Oncotarget

IS - 41

ER -

Three new pancreatic cancer susceptibility signals identified on chromosomes 1q32.1, 5p15.33 and 8q24.21

Abstract

Keywords

UN SDGs

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