Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index

Robert M. Cronin, Julie R. Field, Yuki Bradford, Christian M. Shaffer, Robert J. Carroll, Jonathan D. Mosley, Lisa Bastarache, Todd L. Edwards, Scott J. Hebbring, Simon Lin, Lucia A. Hindorff, Paul K. Crane, Sarah A. Pendergrass, Marylyn Deriggi Ritchie, Dana C. Crawford, Jyotishman Pathak, Suzette J. Bielinski, David S. Carrell, David R. Crosslin, David H. Ledbetter & 15 others David J. Carey, Gerard Tromp, Marc S. Williams, Eric B. Larson, Gail P. Jarvik, Peggy L. Peissig, Murray H. Brilliant, Catherine A. McCarty, Christopher G. Chute, Iftikhar J. Kullo, Erwin Bottinger, Rex Chisholm, Maureen E. Smith, Dan M. Roden, Joshua C. Denny

Research output: Contribution to journalArticle

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Abstract

Phenome-wide association studies (PheWAS) have demonstrated utility in validating genetic associations derived from traditional genetic studies as well as identifying novel genetic associations. Here we used an electronic health record (EHR)-based PheWAS to explore pleiotropy of genetic variants in the fat mass and obesity associated gene (FTO), some of which have been previously associated with obesity and type 2 diabetes (T2D). We used a population of 10,487 individuals of European ancestry with genome-wide genotyping from the Electronic Medical Records and Genomics (eMERGE) Network and another population of 13,711 individuals of European ancestry from the BioVU DNA biobank at Vanderbilt genotyped using Illumina HumanExome BeadChip. A meta-analysis of the two study populations replicated the well-described associations between FTO variants and obesity (odds ratio [OR] = 1.25, 95% Confidence Interval = 1.11-1.24, p = 2.10 × 10 -9 ) and FTO variants and T2D (OR = 1.14, 95% CI = 1.08-1.21, p = 2.34 × 10 -6 ). The meta-analysis also demonstrated that FTO variant rs8050136 was significantly associated with sleep apnea (OR = 1.14, 95% CI = 1.07-1.22, p = 3.33 × 10 -5 ); however, the association was attenuated after adjustment for body mass index (BMI). Novel phenotype associations with obesity-associated FTO variants included fibrocystic breast disease (rs9941349, OR = 0.81, 95% CI = 0.74-0.91, p = 5.41 × 10 -5 ) and trends toward associations with non-alcoholic liver disease and gram-positive bacterial infections. FTO variants not associated with obesity demonstrated other potential disease associations including non-inflammatory disorders of the cervix and chronic periodontitis. These results suggest that genetic variants in FTO may have pleiotropic associations, some of which are not mediated by obesity.

Original languageEnglish (US)
Article numberArticle 250
JournalFrontiers in Genetics
Volume5
Issue numberAUG
DOIs
StatePublished - Jan 1 2014

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Genetic Pleiotropy
Body Mass Index
Obesity
Odds Ratio
Electronic Health Records
Type 2 Diabetes Mellitus
Meta-Analysis
Gram-Positive Bacterial Infections
Fibrocystic Breast Disease
Population
Chronic Periodontitis
Sleep Apnea Syndromes
Genomics
Cervix Uteri
Liver Diseases
Fats
Genome
Confidence Intervals
Phenotype
DNA

All Science Journal Classification (ASJC) codes

  • Molecular Medicine
  • Genetics
  • Genetics(clinical)

Cite this

Cronin, R. M., Field, J. R., Bradford, Y., Shaffer, C. M., Carroll, R. J., Mosley, J. D., ... Denny, J. C. (2014). Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index. Frontiers in Genetics, 5(AUG), [Article 250]. https://doi.org/10.3389/fgene.2014.00250
Cronin, Robert M. ; Field, Julie R. ; Bradford, Yuki ; Shaffer, Christian M. ; Carroll, Robert J. ; Mosley, Jonathan D. ; Bastarache, Lisa ; Edwards, Todd L. ; Hebbring, Scott J. ; Lin, Simon ; Hindorff, Lucia A. ; Crane, Paul K. ; Pendergrass, Sarah A. ; Ritchie, Marylyn Deriggi ; Crawford, Dana C. ; Pathak, Jyotishman ; Bielinski, Suzette J. ; Carrell, David S. ; Crosslin, David R. ; Ledbetter, David H. ; Carey, David J. ; Tromp, Gerard ; Williams, Marc S. ; Larson, Eric B. ; Jarvik, Gail P. ; Peissig, Peggy L. ; Brilliant, Murray H. ; McCarty, Catherine A. ; Chute, Christopher G. ; Kullo, Iftikhar J. ; Bottinger, Erwin ; Chisholm, Rex ; Smith, Maureen E. ; Roden, Dan M. ; Denny, Joshua C. / Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index. In: Frontiers in Genetics. 2014 ; Vol. 5, No. AUG.
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abstract = "Phenome-wide association studies (PheWAS) have demonstrated utility in validating genetic associations derived from traditional genetic studies as well as identifying novel genetic associations. Here we used an electronic health record (EHR)-based PheWAS to explore pleiotropy of genetic variants in the fat mass and obesity associated gene (FTO), some of which have been previously associated with obesity and type 2 diabetes (T2D). We used a population of 10,487 individuals of European ancestry with genome-wide genotyping from the Electronic Medical Records and Genomics (eMERGE) Network and another population of 13,711 individuals of European ancestry from the BioVU DNA biobank at Vanderbilt genotyped using Illumina HumanExome BeadChip. A meta-analysis of the two study populations replicated the well-described associations between FTO variants and obesity (odds ratio [OR] = 1.25, 95{\%} Confidence Interval = 1.11-1.24, p = 2.10 × 10 -9 ) and FTO variants and T2D (OR = 1.14, 95{\%} CI = 1.08-1.21, p = 2.34 × 10 -6 ). The meta-analysis also demonstrated that FTO variant rs8050136 was significantly associated with sleep apnea (OR = 1.14, 95{\%} CI = 1.07-1.22, p = 3.33 × 10 -5 ); however, the association was attenuated after adjustment for body mass index (BMI). Novel phenotype associations with obesity-associated FTO variants included fibrocystic breast disease (rs9941349, OR = 0.81, 95{\%} CI = 0.74-0.91, p = 5.41 × 10 -5 ) and trends toward associations with non-alcoholic liver disease and gram-positive bacterial infections. FTO variants not associated with obesity demonstrated other potential disease associations including non-inflammatory disorders of the cervix and chronic periodontitis. These results suggest that genetic variants in FTO may have pleiotropic associations, some of which are not mediated by obesity.",
author = "Cronin, {Robert M.} and Field, {Julie R.} and Yuki Bradford and Shaffer, {Christian M.} and Carroll, {Robert J.} and Mosley, {Jonathan D.} and Lisa Bastarache and Edwards, {Todd L.} and Hebbring, {Scott J.} and Simon Lin and Hindorff, {Lucia A.} and Crane, {Paul K.} and Pendergrass, {Sarah A.} and Ritchie, {Marylyn Deriggi} and Crawford, {Dana C.} and Jyotishman Pathak and Bielinski, {Suzette J.} and Carrell, {David S.} and Crosslin, {David R.} and Ledbetter, {David H.} and Carey, {David J.} and Gerard Tromp and Williams, {Marc S.} and Larson, {Eric B.} and Jarvik, {Gail P.} and Peissig, {Peggy L.} and Brilliant, {Murray H.} and McCarty, {Catherine A.} and Chute, {Christopher G.} and Kullo, {Iftikhar J.} and Erwin Bottinger and Rex Chisholm and Smith, {Maureen E.} and Roden, {Dan M.} and Denny, {Joshua C.}",
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Cronin, RM, Field, JR, Bradford, Y, Shaffer, CM, Carroll, RJ, Mosley, JD, Bastarache, L, Edwards, TL, Hebbring, SJ, Lin, S, Hindorff, LA, Crane, PK, Pendergrass, SA, Ritchie, MD, Crawford, DC, Pathak, J, Bielinski, SJ, Carrell, DS, Crosslin, DR, Ledbetter, DH, Carey, DJ, Tromp, G, Williams, MS, Larson, EB, Jarvik, GP, Peissig, PL, Brilliant, MH, McCarty, CA, Chute, CG, Kullo, IJ, Bottinger, E, Chisholm, R, Smith, ME, Roden, DM & Denny, JC 2014, 'Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index', Frontiers in Genetics, vol. 5, no. AUG, Article 250. https://doi.org/10.3389/fgene.2014.00250

Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index. / Cronin, Robert M.; Field, Julie R.; Bradford, Yuki; Shaffer, Christian M.; Carroll, Robert J.; Mosley, Jonathan D.; Bastarache, Lisa; Edwards, Todd L.; Hebbring, Scott J.; Lin, Simon; Hindorff, Lucia A.; Crane, Paul K.; Pendergrass, Sarah A.; Ritchie, Marylyn Deriggi; Crawford, Dana C.; Pathak, Jyotishman; Bielinski, Suzette J.; Carrell, David S.; Crosslin, David R.; Ledbetter, David H.; Carey, David J.; Tromp, Gerard; Williams, Marc S.; Larson, Eric B.; Jarvik, Gail P.; Peissig, Peggy L.; Brilliant, Murray H.; McCarty, Catherine A.; Chute, Christopher G.; Kullo, Iftikhar J.; Bottinger, Erwin; Chisholm, Rex; Smith, Maureen E.; Roden, Dan M.; Denny, Joshua C.

In: Frontiers in Genetics, Vol. 5, No. AUG, Article 250, 01.01.2014.

Research output: Contribution to journalArticle

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T1 - Phenome-wide association studies demonstrating pleiotropy of genetic variants within FTO with and without adjustment for body mass index

AU - Cronin, Robert M.

AU - Field, Julie R.

AU - Bradford, Yuki

AU - Shaffer, Christian M.

AU - Carroll, Robert J.

AU - Mosley, Jonathan D.

AU - Bastarache, Lisa

AU - Edwards, Todd L.

AU - Hebbring, Scott J.

AU - Lin, Simon

AU - Hindorff, Lucia A.

AU - Crane, Paul K.

AU - Pendergrass, Sarah A.

AU - Ritchie, Marylyn Deriggi

AU - Crawford, Dana C.

AU - Pathak, Jyotishman

AU - Bielinski, Suzette J.

AU - Carrell, David S.

AU - Crosslin, David R.

AU - Ledbetter, David H.

AU - Carey, David J.

AU - Tromp, Gerard

AU - Williams, Marc S.

AU - Larson, Eric B.

AU - Jarvik, Gail P.

AU - Peissig, Peggy L.

AU - Brilliant, Murray H.

AU - McCarty, Catherine A.

AU - Chute, Christopher G.

AU - Kullo, Iftikhar J.

AU - Bottinger, Erwin

AU - Chisholm, Rex

AU - Smith, Maureen E.

AU - Roden, Dan M.

AU - Denny, Joshua C.

PY - 2014/1/1

Y1 - 2014/1/1

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